Citrus Sinensis ID: 038205

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-----
Protein Sequence
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHccccEEEEEEcccccccccccccccccccccccEEEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccccHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccEcccccccccccEEccccccccccccccEccccHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccHHHHccccEEEEEEEcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHHccccHHHHHccccccccccHHHEEcHcccccccc
Coil and Loop (DISEMBL)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTLKAKIdkkkscfngwypnwrfrywmdkempiprffssfETTESACNQIIEALKKDSTkmvglhglggvgktTLAKFVGNqlrqnnifdkvgiatvsqdpsiINVQSELVKSLGwaltekdeEDRADRLRLMFSESKSRKILVILDDVWKeldletigipvgdrdnCCKILLTTRLQQVCYrmgcdprikldaLDQAEGLDLLRkhagidvadkTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNakldkiegidkdsrgvygcLKFSYDYLNGEDS
Flexible Loop (DISEMBL)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKEledketnlkkekdginerveqerqkhcaivvekDVEKWLADVVKEMADVrtlkakidkkkscfngwyPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGwaltekdeedrADRLrlmfsesksrkilvILDDVWKELDLetigipvgdrdnCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRkhagidvadktmTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDklqnakldkiegidkdsrgvygCLKFSYDYLNGEDS
Low Complexity Region (SEG)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS
Disordered region (IsUnstruct)
*****GIASKLGELLVDATIKQARYLFCFNSIVKEL***********************KHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT************LMF****SRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYL*****
Disordered Region (DISOPRED)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERV*************KDVEKWLADVVKEMADVRT******K**SCFNGWYPNW**************************NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWAL***********LRL*FSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAK********KDSRGVYGCLKFSY*YLN****
Disordered Region (DISEMBL)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS
Disordered Region (DISPRO)
MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKS**********F***********RF*SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYL*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEILSGIASKLGELLVDATIKQARYLFCFNSIxxxxxxxxxxxxxxxxxxxxxxxxxxxxHCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS
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	375	2.2.26 [Sep-21-2011]
Q8L3R3	885	Disease resistance protei	yes	no	0.68	0.288	0.314	3e-33
O64973	889	Disease resistance protei	no	no	0.672	0.283	0.316	3e-32
Q8RXS5	888	Probable disease resistan	no	no	0.626	0.264	0.339	3e-31
Q9T048	985	Disease resistance protei	no	no	0.621	0.236	0.338	3e-29
Q9FG91	848	Probable disease resistan	no	no	0.618	0.273	0.352	5e-29
P60838	894	Probable disease resistan	no	no	0.674	0.282	0.305	5e-29
O23317	719	Probable disease resistan	no	no	0.6	0.312	0.314	7e-29
O64789	925	Probable disease resistan	no	no	0.661	0.268	0.311	1e-28
O22727	967	Probable disease resistan	no	no	0.666	0.258	0.309	8e-28
O64790	762	Probable disease resistan	no	no	0.661	0.325	0.303	8e-28

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  142 bits (359), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 84/267 (31%), Positives = 151/267 (56%), Gaps = 12/267 (4%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
           +E+PI    S+    +S  +++   L +D   +VGL+G+GGVGKTTL   + N+  +   
Sbjct: 149 EELPIQ---STIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGG 205

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
            FD V    VS++ ++  +Q  + + LG      DE+++  R   + +  + +K +++LD
Sbjct: 206 GFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLD 265

Query: 232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
           D+W++++L+ IG+P    +N CK+  TT  ++VC RMG D  +++  LD     DLL+K 
Sbjct: 266 DIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKK 325

Query: 292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
            G +   +   +  ++++V+++C GLPLA+  +G  +   RT  EW  A + L +A    
Sbjct: 326 VGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVLTSAT--D 383

Query: 349 IEGIDKDSRGVYGCLKFSYDYLNGEDS 375
             G++ +   +   LK+SYD LNGED+
Sbjct: 384 FSGMEDE---ILPILKYSYDSLNGEDA 407

Disease resistance (R) protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  139 bits (350), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 84/265 (31%), Positives = 150/265 (56%), Gaps = 13/265 (4%)

Query: 114 EMPI-PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
           E+P  P         E A N+++E    D + ++GL+G+GGVGKTTL   + N+  + ++
Sbjct: 150 EIPFQPTIVGQEIMLEKAWNRLME----DGSGILGLYGMGGVGKTTLLTKINNKFSKIDD 205

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
            FD V    VS+  ++  +Q ++ + +G    E  E++       + +  + RK +++LD
Sbjct: 206 RFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLD 265

Query: 232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
           D+W++++L+ +G+P   +DN CK+  TTR + VC RMG D  +++  L   E  DL +  
Sbjct: 266 DIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMK 325

Query: 292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
            G +   +   +  ++++VA +C+GLPLA+  +G A+   RT  EW  A+D L ++ +D 
Sbjct: 326 VGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAID- 384

Query: 349 IEGIDKDSRGVYGCLKFSYDYLNGE 373
             G++ +   +   LK+SYD LNGE
Sbjct: 385 FSGMEDE---ILHVLKYSYDNLNGE 406

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  136 bits (342), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 86/253 (33%), Positives = 143/253 (56%), Gaps = 18/253 (7%)

Query: 128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL-RQNNIFDKVGIATVSQDPS 186
           ESA N+++E    D   ++GLHG+GGVGKTTL   + N+  R    FD V    VS++  
Sbjct: 163 ESAWNRLME----DEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQ 218

Query: 187 IINVQSEL---VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIG 243
           I  +Q E+   ++S      +K E+ +A  +   ++  K ++ +++LDD+W ++DL  +G
Sbjct: 219 IQRIQDEIWEKLRSDNEKWKQKTEDIKASNI---YNVLKHKRFVLLLDDIWSKVDLTEVG 275

Query: 244 IPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAG-IDVADKT-M 301
           +P   R+N CKI+ TTRL+++C RMG D  +++  L   +  DL  K  G I +     +
Sbjct: 276 VPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEI 335

Query: 302 TDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDKIEGIDKDSRGVY 360
             V++ VA +C+GLPLA+  +G  +   RT  EW  A+D L ++  +   G++ +   + 
Sbjct: 336 PTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAE-FSGMEDE---IL 391

Query: 361 GCLKFSYDYLNGE 373
             LK+SYD L  E
Sbjct: 392 PILKYSYDNLKSE 404

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  129 bits (324), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 82/242 (33%), Positives = 132/242 (54%), Gaps = 9/242 (3%)

Query: 133 QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ---NNIFDKVGIATVSQDPSIIN 189
           +I + L  +  + +G+ G+GGVGKTTL + + N+LR+      F  V    VS++     
Sbjct: 154 KIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPRE 213

Query: 190 VQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDR 249
           VQ ++ + L      ++ E++  R R+     K RK L+ILDDVWK +DL+ +GIP  + 
Sbjct: 214 VQKQIAERLDIDTQMEESEEKLAR-RIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEE 272

Query: 250 DNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVA 309
           +   K++LT+R  +VC  M  D  +++D L + +  +L  K+AG  V    +  ++K V+
Sbjct: 273 NKGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVS 332

Query: 310 DECKGLPLAIKAVGSALR-LRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYD 368
            EC GLPLAI  VG+A+R  +    WN  L KL  +    +  I      ++  LK SYD
Sbjct: 333 QECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKS----VPWIKSIEEKIFQPLKLSYD 388

Query: 369 YL 370
           +L
Sbjct: 389 FL 390

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  129 bits (323), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 86/244 (35%), Positives = 140/244 (57%), Gaps = 12/244 (4%)

Query: 136 EALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NNIFDKVGIATVSQDPSIINVQSEL 194
           E+L  D  + +GL+G+GG+GKTTL + + N+  +  + FD V    VS+D  +  +Q ++
Sbjct: 165 ESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQI 224

Query: 195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCK 254
           +  L     E + E  + +  L+ +  K +K +++LDD+W E+DL  IG+P   R+N  K
Sbjct: 225 LGRLR-PDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSK 283

Query: 255 ILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDV---SKRVADE 311
           I+ TTR ++VC  M  D +IK+D L   E  +L R   G D+  ++  D+   ++ VA +
Sbjct: 284 IVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVG-DIILRSHQDIPALARIVAAK 342

Query: 312 CKGLPLAIKAVGSALRLR-TADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYL 370
           C GLPLA+  +G A+  + T  EW  A++ L N+   K  G+++    +   LKFSYD L
Sbjct: 343 CHGLPLALNVIGKAMVCKETVQEWRHAINVL-NSPGHKFPGMEER---ILPILKFSYDSL 398

Query: 371 -NGE 373
            NGE
Sbjct: 399 KNGE 402

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  129 bits (323), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 81/265 (30%), Positives = 142/265 (53%), Gaps = 12/265 (4%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-N 171
           +EMPI     +    E+   ++   L +D  ++VGL+G+GGVGKTTL   + N+  +  +
Sbjct: 149 EEMPIQ---PTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCS 205

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
            F  V    VS+ P I  +Q ++ K L     E D  +   R   +++    +K +++LD
Sbjct: 206 GFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLD 265

Query: 232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
           D+W++++LE +G+P   R N CK++ TTR + VC RM  D  +++  L+  E  +L +  
Sbjct: 266 DIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMK 325

Query: 292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
            G +       + +++++VA +C GLPLA+  +G  +   R   EW  A+D L +   + 
Sbjct: 326 VGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAE- 384

Query: 349 IEGIDKDSRGVYGCLKFSYDYLNGE 373
             G+++    +   LK+SYD LN E
Sbjct: 385 FPGMEQ----ILPILKYSYDNLNKE 405

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O23317|DRL24_ARATH Probable disease resistance protein At4g14610 OS=Arabidopsis thaliana GN=At4g14610 PE=3 SV=1

 Score =  128 bits (322), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 73/232 (31%), Positives = 131/232 (56%), Gaps = 7/232 (3%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI 172
           +EMPI    S+    E+   ++   L KD  K++GL+G+GGVGKTTL   +  +  + + 
Sbjct: 122 EEMPIQ---STVVGQETMLERVWNTLMKDGFKIMGLYGMGGVGKTTLLTQINKKFSETDG 178

Query: 173 -FDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
            FD V    VS+   I  +Q ++ K LG    E D+++   R   + +  +  K +++LD
Sbjct: 179 GFDIVMWVVVSKTSEIYRIQEDIAKRLGLTGEEWDKKNENKRAVDIHNVLRRHKFVLLLD 238

Query: 232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
           D+W++++LE +G+P   R+N   +  TTR + VC RMG D  +++  L+  +  DL +  
Sbjct: 239 DIWEKVNLELVGVPYPSRENGSIVAFTTRSRDVCGRMGVDDPMQVSCLEPEDAWDLFQNK 298

Query: 292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLR-TADEWNVALDK 340
            G +   +   + +++K+VA++C+GLPLA+  +G  +  + T  EW  A+D+
Sbjct: 299 VGENTLKSHPDIPELAKQVAEKCRGLPLALNVIGETMACKSTVQEWRHAIDE 350

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  127 bits (320), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 84/270 (31%), Positives = 142/270 (52%), Gaps = 22/270 (8%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
           +E P        E  E A N+++E    D   ++GLHG+GGVGKTTL K + N+  +   
Sbjct: 148 EERPTQPTIGQEEMLEKAWNRLME----DGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGG 203

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLG-----WALTEKDEEDRADRLRLMFSESKSRKI 226
            FD V    VSQ   +  +Q ++ + L      W    K+E D+A  +  +    K ++ 
Sbjct: 204 TFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWK--NKNESDKATDIHRVL---KGKRF 258

Query: 227 LVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLD 286
           +++LDD+W+++DLE IGIP     N CK+  TTR ++VC  MG    ++++ L+  +  +
Sbjct: 259 VLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWE 318

Query: 287 LLRKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQN 343
           L +   G +   +D  +  +++ VA +C+GLPLA+  +G  +  +T   EW  A+D L  
Sbjct: 319 LFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTR 378

Query: 344 AKLDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
           +  +   G++     +   LK+SYD L  E
Sbjct: 379 SAAE-FSGMENK---ILPILKYSYDSLGDE 404

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  124 bits (312), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 83/268 (30%), Positives = 141/268 (52%), Gaps = 18/268 (6%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN- 171
           +E P        E  + A N+++E    D   ++GLHG+GGVGKTTL K + N+  +   
Sbjct: 147 EERPTQPTIGQEEMLKKAWNRLME----DGVGIMGLHGMGGVGKTTLFKKIHNKFAETGG 202

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLGWA---LTEKDEEDRADRLRLMFSESKSRKILV 228
            FD V    VSQ   +  +Q ++ + L         K+E D+A  +  +    K ++ ++
Sbjct: 203 TFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVL---KGKRFVL 259

Query: 229 ILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLL 288
           +LDD+W+++DLE IGIP     N CK+  TTR Q+VC +MG    +++  L+  +  +L 
Sbjct: 260 MLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELF 319

Query: 289 RKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQNAK 345
           +   G +   +D  +  +++ VA +C+GLPLA+  +G  +  +T   EW  A+D L  + 
Sbjct: 320 KNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSA 379

Query: 346 LDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
            +  +  +K    +   LK+SYD L  E
Sbjct: 380 AEFSDMQNK----ILPILKYSYDSLEDE 403

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64790|DRL17_ARATH Probable disease resistance protein At1g61300 OS=Arabidopsis thaliana GN=At1g61300 PE=2 SV=2

 Score =  124 bits (312), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 82/270 (30%), Positives = 141/270 (52%), Gaps = 22/270 (8%)

Query: 113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL-RQNN 171
           +E P        E  E A N+++E    D   ++GLHG+GGVGKTTL K + N+  + ++
Sbjct: 35  EERPTQPTIGQEEMLEKAWNRLME----DRVGIMGLHGMGGVGKTTLFKKIHNKFAKMSS 90

Query: 172 IFDKVGIATVSQDPSIINVQSELVKSLG-----WALTEKDEEDRADRLRLMFSESKSRKI 226
            FD V    VS+   +  +Q ++ + L      W    K+E D+A  +  +    K ++ 
Sbjct: 91  RFDIVIWIVVSKGAKLSKLQEDIAEKLHLCDDLWK--NKNESDKATDIHRVL---KGKRF 145

Query: 227 LVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLD 286
           +++LDD+W+++DLE IG+P     N CK+  TTR Q+VC  MG    +++  L+  +  +
Sbjct: 146 VLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTRDQKVCGEMGDHKPMQVKCLEPEDAWE 205

Query: 287 LLRKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQN 343
           L +   G +   +D  + ++++ VA +C+GLPLA+  +G  +  +T   EW  A+D L  
Sbjct: 206 LFKNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETMASKTMVQEWEHAIDVLTR 265

Query: 344 AKLDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
           +  +           +   LK+SYD L  E
Sbjct: 266 SAAE----FSNMGNKILPILKYSYDSLGDE 291

Probable 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	375
224117086	1078	cc-nbs-lrr resistance protein [Populus t	0.968	0.336	0.4	7e-74
224112158	655	cc-nbs-lrr resistance protein [Populus t	0.965	0.552	0.389	8e-70
255563929	1114	Disease resistance protein RGA2, putativ	0.970	0.326	0.390	1e-66
224112635	656	cc-nbs-lrr resistance protein [Populus t	0.965	0.551	0.368	2e-66
255563921	515	Late blight resistance protein R1-A, put	0.845	0.615	0.417	2e-65
255563925	750	hypothetical protein RCOM_0585500 [Ricin	0.845	0.422	0.414	1e-62
357459809	1318	Nbs-lrr resistance protein [Medicago tru	0.978	0.278	0.364	9e-62
357459805	1165	Cc-nbs-lrr resistance protein [Medicago	0.941	0.303	0.340	2e-58
317487697	168	nucleotide binding site protein [Citrus	0.445	0.994	0.684	5e-58
357494411	1924	Cc-nbs-lrr resistance protein [Medicago	0.944	0.183	0.345	2e-55

>gi|224117086|ref|XP_002331783.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832242|gb|EEE70719.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  283 bits (725), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 160/400 (40%), Positives = 233/400 (58%), Gaps = 37/400 (9%)

Query: 7   IASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVV 66
           I SK+ EL+V+   +Q RY+FCFN+ V+E ++++ NL    DG+ + VE   +   A  +
Sbjct: 10  IISKIAELMVEPVGRQFRYMFCFNTFVEEFKERKENLALALDGLQDDVEAAERN--AKEI 67

Query: 67  EKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNW--------------------- 105
            +DV++WL D   E+   + L+ +I K   CF  W PN                      
Sbjct: 68  YEDVKQWLEDANNEIEGAKPLENEIGKNGKCFT-WCPNCMRQFKLSKALAKKSETFRELG 126

Query: 106 ----RFRYWMDKEMPIP------RFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVG 155
               +F+    K  P P      + F+  +++E A  QI+EALK D   M+GL G+GGVG
Sbjct: 127 ESSEKFKTVAHKAHPQPIEFLPSKEFTPLKSSEEAFEQIMEALKDDKVNMIGLCGMGGVG 186

Query: 156 KTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLR 215
           KTTLAK VG + ++  +F +V +ATVSQ+P++ ++Q  +   LG  + EK  E RADRLR
Sbjct: 187 KTTLAKEVGRRAKELQLFPEVLMATVSQNPNVTDIQDRMADKLGLDIKEKSREGRADRLR 246

Query: 216 LMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIK 275
            +  E +  K+L+ILDDVWK +DL+ IGIP GD    CKILLTTRLQ +C  M C  ++ 
Sbjct: 247 HILKEVE--KMLIILDDVWKYIDLKEIGIPFGDDHRGCKILLTTRLQAICSSMECQQKVL 304

Query: 276 LDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWN 335
           L  L + E L L R  AG+   D T+  V++ VA EC+GLP+A+  VG ALR ++  EW 
Sbjct: 305 LRVLTEDEALVLFRIKAGLRDGDSTLNTVAREVARECQGLPIALVTVGRALRGKSEVEWE 364

Query: 336 VALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
           VA  +L+N++   +E ID + R  Y CLK SYDYL  +++
Sbjct: 365 VAFRQLKNSQFLDMEHID-EQRTAYACLKLSYDYLKSKET 403

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224112158|ref|XP_002332820.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834208|gb|EEE72685.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  270 bits (690), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 156/401 (38%), Positives = 233/401 (58%), Gaps = 39/401 (9%)

Query: 6   GIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIV 65
            I SK+ EL+V+   +Q RY+FCFN  VKE + ++  L  EK+ + + V+   +   A  
Sbjct: 9   SIISKIAELMVEPVGRQFRYMFCFNDFVKEFKQQKEKLVSEKERLQDDVKDAERN--AEE 66

Query: 66  VEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNW---------------RFRYW 110
           + +DV+KWL D   E+   + L+ +I K   CF  W PN                 FR  
Sbjct: 67  IYEDVKKWLGDAENEIEGAKPLENEIGKNGKCFT-WCPNCMRQFKFSKALAKKSETFREL 125

Query: 111 MDKE--------MPIP------RFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGK 156
           ++K+         P P      + F+  +++E A   I+EALK D   M+GL G+GGVGK
Sbjct: 126 LEKKSTKVSHRTHPQPIEFLQSKKFTPSKSSEEAFEHIMEALKDDKVNMIGLCGMGGVGK 185

Query: 157 TTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRL-- 214
           TTL + VG   R++ +FD+V +ATVSQ+P++ ++Q+++   LG  +    ++ RADRL  
Sbjct: 186 TTLVRKVGTIARESQLFDEVLMATVSQNPNVTDLQNQMADKLGLDIRGSSKDGRADRLWQ 245

Query: 215 RLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRI 274
           RL     K  ++L+ILDDVWK +D + IGIP GD    CKILLTTRLQ +C    C  ++
Sbjct: 246 RL----KKVERMLIILDDVWKVIDFQEIGIPFGDDHRGCKILLTTRLQGICSYTECRKKV 301

Query: 275 KLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEW 334
            L  L + E  DL R +AG+ V + T+  V++ VA EC+GLP+A+  VG ALR ++A EW
Sbjct: 302 LLSPLPEKEAWDLFRINAGLRVGESTLNTVAREVARECQGLPIALVTVGMALRDKSAVEW 361

Query: 335 NVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
            VA+ +L+N+    +E ID + R  Y CLK SYDYL  +++
Sbjct: 362 EVAIGQLKNSHFPDMEHID-EQRTAYACLKLSYDYLKSKET 401

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563929|ref|XP_002522964.1| Disease resistance protein RGA2, putative [Ricinus communis] gi|223537776|gb|EEF39394.1| Disease resistance protein RGA2, putative [Ricinus communis]

 Score =  259 bits (662), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 156/399 (39%), Positives = 224/399 (56%), Gaps = 35/399 (8%)

Query: 7   IASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVV 66
            A+K+ ELL + T +Q RY+FCFNSIV+EL+ +E NL   +D +  +V    +   A  +
Sbjct: 14  FATKITELLANPTRRQLRYVFCFNSIVEELKKEEKNLMLARDRVQNKVNMALRN--AEEI 71

Query: 67  EKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEM----------- 115
           EKDVE+W+ +    + DV+ LK +I+K    F+ W  +W +RY  +K++           
Sbjct: 72  EKDVEEWMTETNTVIDDVQRLKIEIEKYMKYFDKWCSSWIWRYSFNKKVAKKAVILRRLW 131

Query: 116 ------------PIP--RFFSSFETTES-----ACNQIIEALKKDSTKMVGLHGLGGVGK 156
                       P+    FF S + T S     A NQI+ A+K D   M+GL+G+GGVGK
Sbjct: 132 ESGKFDTVSYQAPLSGTEFFPSKDFTPSKSSRKALNQIMVAVKDDDVNMIGLYGMGGVGK 191

Query: 157 TTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRL 216
           TTL K    +     +FD+V +  VSQ   +I +Q ++   LG     K  E RA RL  
Sbjct: 192 TTLVKEASRKATMLKLFDQVLMVVVSQAQDVIKIQDQMADKLGLNFDVKTTEGRARRLHK 251

Query: 217 MFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKL 276
                K  KIL+ILDDVW+ LDL+ IGIP GD    CKILLTTRL++VC  + C   I L
Sbjct: 252 RLKNEK--KILIILDDVWRYLDLKDIGIPHGDDHKGCKILLTTRLRRVCASLNCQRDIPL 309

Query: 277 DALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNV 336
             L ++E   L +  AG+      + +V+ +V  +CKGLPLAI  VG ALR ++   W V
Sbjct: 310 HVLTESEAWALFKNIAGLHDCSSDLNNVAVKVVRKCKGLPLAIVTVGRALRDKSFSGWKV 369

Query: 337 ALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
           AL KL++++L  I  +DKD +  Y CLK S+D+L  E++
Sbjct: 370 ALQKLKSSRLIDIRDVDKD-KNAYACLKLSFDHLQCEET 407

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224112635|ref|XP_002332743.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222833055|gb|EEE71532.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  259 bits (661), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 147/399 (36%), Positives = 227/399 (56%), Gaps = 37/399 (9%)

Query: 7   IASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVV 66
           I SK+ ELLV+  I+Q RY+FCFN+ V+E +++  NL      + + V+  ++   A  +
Sbjct: 10  IVSKILELLVEPAIRQFRYMFCFNNFVQEFDEQMMNLALAFYRLQDAVDVAQRN--AEEI 67

Query: 67  EKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMP---------- 116
           E DV  WL D   ++  V+ L+ +  K   CF  W PNW  ++ + K +           
Sbjct: 68  EIDVNTWLEDAKNKIEGVKRLQNEKGKIGKCFT-WCPNWMRQFKLSKALAKKTETLRKLE 126

Query: 117 ----IPRF----------------FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGK 156
                P+                 F+  +++E A  QII+ALK D+  M+ L G+GGVGK
Sbjct: 127 ANCKFPKVSHKPPLQDIKFLPSDGFTPSKSSEEALEQIIKALKDDNVNMIRLCGMGGVGK 186

Query: 157 TTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRL 216
           TTL K VG + ++  +FD+V +AT+SQ+P++  +Q ++   LG    E  +E RA RL  
Sbjct: 187 TTLVKEVGRRAKELQLFDEVLMATLSQNPNVTGIQDQMADRLGLKFDENSQEGRAGRL-- 244

Query: 217 MFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKL 276
            +   + +K+L++LDDVWK++D + IGIP GD    CKILLTTRL+++C  M C  ++ L
Sbjct: 245 -WQRMQGKKMLIVLDDVWKDIDFQEIGIPFGDAHRGCKILLTTRLEKICSSMDCQEKVFL 303

Query: 277 DALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNV 336
             L + E   L + +AG+   D  +  V+K VA EC+GLPLA+  VG AL+ ++  EW V
Sbjct: 304 GVLSENEAWALFKINAGLRDEDSDLNRVAKEVARECQGLPLALVTVGKALKDKSEHEWEV 363

Query: 337 ALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
           A ++L+ ++   +E  D D R  Y CLK SYDYL  E++
Sbjct: 364 ASEELKKSQSRHMETFD-DRRNAYACLKLSYDYLKHEET 401

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563921|ref|XP_002522960.1| Late blight resistance protein R1-A, putative [Ricinus communis] gi|223537772|gb|EEF39390.1| Late blight resistance protein R1-A, putative [Ricinus communis]

 Score =  255 bits (652), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 146/350 (41%), Positives = 199/350 (56%), Gaps = 33/350 (9%)

Query: 7   IASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVV 66
           I +K+ ELLV+  I Q RY+FCF++ +++L+ +E  L   +  +   ++   +   A  +
Sbjct: 10  IGAKVAELLVEPVIHQFRYMFCFSNFIEDLKKQEEKLTLAQSRVQNDIDAALRN--AEDI 67

Query: 67  EKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEM----------- 115
           EKDV+ WLAD  K M D++ L+ +I K+K CF  W PNW ++Y + + M           
Sbjct: 68  EKDVQAWLADTNKAMEDIKCLELEIQKEKRCFIKWCPNWIWQYRLSRRMAKKTTNLVQLQ 127

Query: 116 --------------PIPRF----FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKT 157
                         P   F    F   ET+  A  QI+E+L+ D+  M+GLHG+GGVGKT
Sbjct: 128 EKGKFQRVSYHATIPCIEFLSKDFMPSETSRLALEQIVESLRDDAVSMIGLHGMGGVGKT 187

Query: 158 TLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLM 217
           TL K VG Q  +  +FDKV +  VSQ   II VQ +L   L   L EK ++ RA R+   
Sbjct: 188 TLVKAVGKQANELKLFDKVLMLVVSQAQDIIQVQDQLADKLYLYLQEKSKDGRASRIWQR 247

Query: 218 FSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLD 277
               K+  IL+ILDDVWK LDL+ IGIP GD    CKILLTTRLQ VC  M C  +I L 
Sbjct: 248 LKNEKN--ILIILDDVWKYLDLKDIGIPFGDDHKGCKILLTTRLQHVCTSMDCQRQIPLH 305

Query: 278 ALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR 327
            L + E   LL+K+AG+      +T+V+  VA ECKGLP+AI  VG ALR
Sbjct: 306 VLTEGEAWALLKKNAGLSNESSALTNVAMEVARECKGLPIAIVTVGRALR 355

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563925|ref|XP_002522962.1| hypothetical protein RCOM_0585500 [Ricinus communis] gi|223537774|gb|EEF39392.1| hypothetical protein RCOM_0585500 [Ricinus communis]

 Score =  246 bits (629), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 146/352 (41%), Positives = 199/352 (56%), Gaps = 35/352 (9%)

Query: 6   GIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIV 65
            I  K+ ELLV+  I Q  Y+FCF++ +++L+ +E  L   +  +   ++   +   A  
Sbjct: 9   SIGGKIAELLVEPVIHQFHYMFCFSNFIEDLKKQEEKLTLAQSRVQNDIDAALRN--AED 66

Query: 66  VEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEM---------- 115
           +EKDV+ WLAD  K M DV+ L+ +I K+K CF  W PNW ++Y + + M          
Sbjct: 67  IEKDVQAWLADANKAMEDVKCLELEIQKEKRCFIKWCPNWIWQYRLSRRMAKETRNLIQL 126

Query: 116 ---------------PIPRFFSS-FETTES---ACNQIIEALKKDSTKMVGLHGLGGVGK 156
                          P   F S  F  +ES   A  QI+E+L+ ++  M+GLHG+GGVGK
Sbjct: 127 HEKGKFQRVSYLATIPCIEFLSKDFMPSESSRLALKQIMESLRDENVSMIGLHGMGGVGK 186

Query: 157 TTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRL 216
           TTL K VG Q  +  +FDKV +  VSQ   II +Q +L   +   L EK +  RA R+  
Sbjct: 187 TTLVKAVGKQASELKLFDKVLMLVVSQAQDIIQIQDQLADKMYLYLKEKSKVGRASRI-- 244

Query: 217 MFSESKSRK-ILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIK 275
            +   KS K IL+ILDDVWK LDL+ IGIP GD    CKILLTTRLQ VC  M C  +I 
Sbjct: 245 -WQRLKSEKEILIILDDVWKYLDLKDIGIPFGDDHKGCKILLTTRLQHVCTSMDCQRQIP 303

Query: 276 LDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR 327
           L  L + E   LL+K+AG+      +T+V+  VA ECKGLP+AI  VG ALR
Sbjct: 304 LHVLTEGEAWGLLKKNAGLCNESSALTNVAMEVARECKGLPIAIVTVGRALR 355

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357459809|ref|XP_003600185.1| Nbs-lrr resistance protein [Medicago truncatula] gi|355489233|gb|AES70436.1| Nbs-lrr resistance protein [Medicago truncatula]

 Score =  243 bits (621), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 148/406 (36%), Positives = 229/406 (56%), Gaps = 39/406 (9%)

Query: 2   EILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKH 61
           +I+    +K+ E ++   I++ +Y  C   I+K++E++   L  E+D + +RVEQ +Q+ 
Sbjct: 3   DIVITTVAKVSEYIIGPVIREGKYFLCVGKIIKDIENEINELIFERDNLLDRVEQAKQR- 61

Query: 62  CAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEM------ 115
              ++EK VEKWL DV   + +V  L+ ++    SCF G +P WR RY + ++M      
Sbjct: 62  -TEIIEKPVEKWLHDVQSLLEEVEELEQRMRANTSCFRGEFPAWR-RYRIRRKMVKKGEA 119

Query: 116 -----------------PIPRF-------FSSFETTESACNQIIEALKKDSTKMVGLHGL 151
                            P+P         F+ F++T++A NQ++E L  D   M+G++G+
Sbjct: 120 LGKLRCKSDIQPFSHYAPLPGIQYQSSENFTYFQSTKAAYNQLLELLNDDCIYMIGVYGM 179

Query: 152 GGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRA 211
           GG GKTTL   VG + +++N+FDKV   TVSQ  +I ++Q ++   L   L E+ EE RA
Sbjct: 180 GGCGKTTLVTEVGKKAQESNMFDKVISITVSQTQNIRDIQGKMADMLNLKLKEESEEGRA 239

Query: 212 DRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRD-NCCKILLTTRLQQVCYRMGC 270
            RL L   E+K  +ILVI+DD+WKE +L  IGI + + +    KIL+TTR QQVC  M C
Sbjct: 240 QRLWLSLKENK--RILVIIDDLWKEFNLMNIGIHIDNVNKGAWKILVTTRNQQVCTLMDC 297

Query: 271 DPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECKGLPLAIKAVGSALRLR 329
              I L  L + E   L +KHA I D   K+M  V + + D+CKGLPLAI  + S L+ +
Sbjct: 298 QKNIHLALLSKDESWTLFQKHAKITDKFSKSMDGVPRELCDKCKGLPLAIVTMASCLKGK 357

Query: 330 TADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
              EW+VAL K++N+     +  D+  R    CL+ SY YL  +++
Sbjct: 358 HKSEWDVALHKMRNS--SAFDDHDEGVRNALSCLELSYKYLQNKEA 401

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357459805|ref|XP_003600183.1| Cc-nbs-lrr resistance protein [Medicago truncatula] gi|355489231|gb|AES70434.1| Cc-nbs-lrr resistance protein [Medicago truncatula]

 Score =  233 bits (593), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 139/408 (34%), Positives = 223/408 (54%), Gaps = 55/408 (13%)

Query: 1   MEILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQK 60
           + I++ +A  L E LV   I++ +Y  C N ++++LE++  +L  E+D +  RV+Q +++
Sbjct: 6   ISIVAKLAECLAECLVKPVIREGKYFLCVNKVIRDLENEREDLISERDNLLCRVKQAKER 65

Query: 61  HCAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKEM----- 115
               ++EK VEKWL +V   + +V  LK ++     CF   +P WR RY + K+M     
Sbjct: 66  --TEIIEKPVEKWLDEVKSLLEEVEALKQRMRTNTRCFQRDFPTWR-RYRLSKQMVKKAQ 122

Query: 116 ------------------PIPRF--------FSSFETTESACNQIIEALKKDSTKMVGLH 149
                             P+P          F+ F++T+ A NQ++E L+ D   M+G++
Sbjct: 123 AMERLKGKSNIQPFSHLAPLPGIQYQYSSENFTCFQSTKVAYNQLLELLRDDCIHMIGVY 182

Query: 150 GLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEED 209
           G+GG GKTTLA  VG +  ++N+FDKV + TVSQ P++  +Q ++   L   L+E+DE++
Sbjct: 183 GMGGCGKTTLATEVGKKAEESNMFDKVILITVSQTPNVRKIQGKMAALLNLKLSEEDEDE 242

Query: 210 RADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCC-KILLTTRLQQVCYRM 268
           RA                  LDD+WK+ +L +IGI +   +    KIL+TTR +QVC  M
Sbjct: 243 RAQ-----------------LDDLWKKFNLTSIGIRIDSVNKGAWKILVTTRNRQVCTSM 285

Query: 269 GCDPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECKGLPLAIKAVGSALR 327
            C   I L  L + E   L +KHA I D   K++  V   + ++CKGLPLAI  V S+L+
Sbjct: 286 NCQKIINLGLLSENESWTLFQKHADITDEFSKSLGGVPHELCNKCKGLPLAIVTVASSLK 345

Query: 328 LRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
            +   EW+VAL KL+N+   + +  D+  R    CL+ SY YL  +++
Sbjct: 346 GKHKSEWDVALYKLRNSA--EFDDHDEGVRDALSCLELSYTYLQNKEA 391

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317487697|gb|ADV31394.1| nucleotide binding site protein [Citrus reticulata x Citrus trifoliata]

 Score =  231 bits (589), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 115/168 (68%), Positives = 134/168 (79%), Gaps = 1/168 (0%)

Query: 153 GVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRAD 212
           GVGKTTLAKFVGNQLRQ NIFDKVGIAT+S+ P+IINV++EL+KSLGW L ++DE    D
Sbjct: 1   GVGKTTLAKFVGNQLRQKNIFDKVGIATISRHPNIINVRNELMKSLGWELKQEDENHGVD 60

Query: 213 RLRLMFSESKSRKILVILDDVWKELDL-ETIGIPVGDRDNCCKILLTTRLQQVCYRMGCD 271
           RLR MFS+SKS KI +I+DDVW  LDL E +GIPVGD DN CKILLTTRLQ VC  M CD
Sbjct: 61  RLRSMFSDSKSTKIFIIIDDVWNALDLKEKLGIPVGDSDNLCKILLTTRLQSVCKSMRCD 120

Query: 272 PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI 319
           P+I+L  L   EGL LL+K+AGID  D T+ DVSK VA +C GLPLA+
Sbjct: 121 PQIQLGTLTAEEGLALLQKNAGIDANDSTLNDVSKDVAGQCSGLPLAL 168

Source: Citrus reticulata x Citrus trifoliata

Species: Citrus reticulata x Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494411|ref|XP_003617494.1| Cc-nbs-lrr resistance protein [Medicago truncatula] gi|355518829|gb|AET00453.1| Cc-nbs-lrr resistance protein [Medicago truncatula]

 Score =  222 bits (566), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 141/408 (34%), Positives = 219/408 (53%), Gaps = 54/408 (13%)

Query: 2   EILSGIASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKH 61
           +I   +A+K+ E LV   +  ARY+F FN IV  L DK+  L   +  +NE +++ R+K 
Sbjct: 3   DIALSVAAKVSEYLVKPLLHHARYMFGFNKIVTNLYDKKDKLILTQKSVNEHMKEARRK- 61

Query: 62  CAIVVEKDVEKWLADVVKEMADVRTLKAKIDKKKSCFNGWYPNWRFRYWMDKE------- 114
              ++E+ VE+W+ DV   + DV  L+ K  + K C+         +Y++ KE       
Sbjct: 62  -TEIIEESVERWMNDVKNVLKDVEKLEEKTKENKGCYRV-----PLQYFLAKEVENATEK 115

Query: 115 -----------------MPIPRFFSS-----FETTESACNQIIEALKKDSTKMVGLHGLG 152
                            +P  ++FSS      ++TE A N+++EALK     M+G HG+G
Sbjct: 116 MMNLNSCNFEPFSRRTELPGMKYFSSKNFVYSKSTEHAYNKLMEALKDRKYHMIGFHGMG 175

Query: 153 GVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRAD 212
           G GKTTL K VG +  +  +FDKV +A VS +P +  +Q ++  SL   L E+    RA 
Sbjct: 176 GSGKTTLVKEVGKKAEELQLFDKVVMAVVSHNPEVTYIQGQIADSLDLILREESPIGRAQ 235

Query: 213 RLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDP 272
           RL    +  ++ + LVILDDVW+ L+ E IGIP      CC +LLTTR + VC  M C  
Sbjct: 236 RLS---TSLQNERTLVILDDVWENLEFEAIGIP-----PCCTVLLTTRGRDVCVCMNCQI 287

Query: 273 RIKLDALDQAEGLDLLRKHAGIDVADKT-----MTDVSKRVADECKGLPLAIKAVGSALR 327
            ++L  LD+ E   L ++ A  D+ D +     + +V +++A +CKGLP+AI  + S LR
Sbjct: 288 TVELSLLDEEEAWTLFKRCA--DIIDDSPYALKLKNVPRKIAKKCKGLPIAIVTMASMLR 345

Query: 328 LRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGEDS 375
            +  +EW +AL +L+  +   I+G +  S   Y C+K SYD L  + S
Sbjct: 346 GKRVEEWELALLRLEETQ--TIDGEEVLS-SCYACIKLSYDNLTKQVS 390

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	375
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.68	0.288	0.314	1.2e-33
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.672	0.283	0.316	1.1e-32
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.632	0.266	0.342	3.8e-32
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.674	0.282	0.309	8.9e-32
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.666	0.258	0.313	4e-31
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.618	0.273	0.352	2.3e-30
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.666	0.278	0.302	2.8e-30
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.621	0.236	0.338	4e-30
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.666	0.328	0.302	1.3e-29
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.664	0.279	0.335	8.2e-29

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 376 (137.4 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 84/267 (31%), Positives = 151/267 (56%)

Query:   113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
             +E+PI    S+    +S  +++   L +D   +VGL+G+GGVGKTTL   + N+  +   
Sbjct:   149 EELPIQ---STIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGG 205

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
              FD V    VS++ ++  +Q  + + LG      DE+++  R   + +  + +K +++LD
Sbjct:   206 GFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLD 265

Query:   232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
             D+W++++L+ IG+P    +N CK+  TT  ++VC RMG D  +++  LD     DLL+K 
Sbjct:   266 DIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKK 325

Query:   292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
              G +   +   +  ++++V+++C GLPLA+  +G  +   RT  EW  A + L +A    
Sbjct:   326 VGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVLTSAT--D 383

Query:   349 IEGIDKDSRGVYGCLKFSYDYLNGEDS 375
               G++ +   +   LK+SYD LNGED+
Sbjct:   384 FSGMEDE---ILPILKYSYDSLNGEDA 407

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 367 (134.2 bits), Expect = 1.1e-32, P = 1.1e-32
 Identities = 84/265 (31%), Positives = 150/265 (56%)

Query:   114 EMPI-PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
             E+P  P         E A N+++E    D + ++GL+G+GGVGKTTL   + N+  + ++
Sbjct:   150 EIPFQPTIVGQEIMLEKAWNRLME----DGSGILGLYGMGGVGKTTLLTKINNKFSKIDD 205

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
              FD V    VS+  ++  +Q ++ + +G    E  E++       + +  + RK +++LD
Sbjct:   206 RFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLD 265

Query:   232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
             D+W++++L+ +G+P   +DN CK+  TTR + VC RMG D  +++  L   E  DL +  
Sbjct:   266 DIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMK 325

Query:   292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
              G +   +   +  ++++VA +C+GLPLA+  +G A+   RT  EW  A+D L ++ +D 
Sbjct:   326 VGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAID- 384

Query:   349 IEGIDKDSRGVYGCLKFSYDYLNGE 373
               G++ +   +   LK+SYD LNGE
Sbjct:   385 FSGMEDE---ILHVLKYSYDNLNGE 406

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 3.8e-32, P = 3.8e-32
 Identities = 86/251 (34%), Positives = 143/251 (56%)

Query:   128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL-RQNNIFDKVGIATVSQDPS 186
             ESA N+++E    D   ++GLHG+GGVGKTTL   + N+  R    FD V    VS++  
Sbjct:   163 ESAWNRLME----DEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQ 218

Query:   187 IINVQSELVKSLGWALTEKDEEDRAD-RLRLMFSESKSRKILVILDDVWKELDLETIGIP 245
             I  +Q E+ + L  +  EK ++   D +   +++  K ++ +++LDD+W ++DL  +G+P
Sbjct:   219 IQRIQDEIWEKLR-SDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVP 277

Query:   246 VGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAG-IDVADKT-MTD 303
                R+N CKI+ TTRL+++C RMG D  +++  L   +  DL  K  G I +     +  
Sbjct:   278 FPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPT 337

Query:   304 VSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGC 362
             V++ VA +C+GLPLA+  +G  +   RT  EW  A+D L ++  +   G++ +   +   
Sbjct:   338 VARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAE-FSGMEDE---ILPI 393

Query:   363 LKFSYDYLNGE 373
             LK+SYD L  E
Sbjct:   394 LKYSYDNLKSE 404

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 339 (124.4 bits), Expect = 8.9e-32, Sum P(2) = 8.9e-32
 Identities = 82/265 (30%), Positives = 141/265 (53%)

Query:   113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-N 171
             +EMPI       ET      ++   L +D  ++VGL+G+GGVGKTTL   + N+  +  +
Sbjct:   149 EEMPIQPTIVGQETM---LERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCS 205

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILD 231
              F  V    VS+ P I  +Q ++ K L     E D  +   R   +++    +K +++LD
Sbjct:   206 GFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLD 265

Query:   232 DVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKH 291
             D+W++++LE +G+P   R N CK++ TTR + VC RM  D  +++  L+  E  +L +  
Sbjct:   266 DIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMK 325

Query:   292 AGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRL-RTADEWNVALDKLQNAKLDK 348
              G +       + +++++VA +C GLPLA+  +G  +   R   EW  A+D L +   + 
Sbjct:   326 VGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAE- 384

Query:   349 IEGIDKDSRGVYGCLKFSYDYLNGE 373
               G+++    +   LK+SYD LN E
Sbjct:   385 FPGMEQ----ILPILKYSYDNLNKE 405

GO:0006952 "defense response" evidence=IGI;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 4.0e-31, Sum P(2) = 4.0e-31
 Identities = 84/268 (31%), Positives = 141/268 (52%)

Query:   113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN- 171
             +E P        E  + A N+++E    D   ++GLHG+GGVGKTTL K + N+  +   
Sbjct:   147 EERPTQPTIGQEEMLKKAWNRLME----DGVGIMGLHGMGGVGKTTLFKKIHNKFAETGG 202

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWA---LTEKDEEDRADRLRLMFSESKSRKILV 228
              FD V    VSQ   +  +Q ++ + L         K+E D+A  +  +    K ++ ++
Sbjct:   203 TFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVL---KGKRFVL 259

Query:   229 ILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLL 288
             +LDD+W+++DLE IGIP     N CK+  TTR Q+VC +MG    +++  L+  +  +L 
Sbjct:   260 MLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELF 319

Query:   289 RKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQNAK 345
             +   G +   +D  +  +++ VA +C+GLPLA+  +G  +  +T   EW  A+D L  + 
Sbjct:   320 KNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSA 379

Query:   346 LDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
                 E  D  ++ +   LK+SYD L  E
Sbjct:   380 A---EFSDMQNK-ILPILKYSYDSLEDE 403

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 86/244 (35%), Positives = 140/244 (57%)

Query:   136 EALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NNIFDKVGIATVSQDPSIINVQSEL 194
             E+L  D  + +GL+G+GG+GKTTL + + N+  +  + FD V    VS+D  +  +Q ++
Sbjct:   165 ESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQI 224

Query:   195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCK 254
             +  L     E + E  + +  L+ +  K +K +++LDD+W E+DL  IG+P   R+N  K
Sbjct:   225 LGRLR-PDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSK 283

Query:   255 ILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDV---SKRVADE 311
             I+ TTR ++VC  M  D +IK+D L   E  +L R   G D+  ++  D+   ++ VA +
Sbjct:   284 IVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVG-DIILRSHQDIPALARIVAAK 342

Query:   312 CKGLPLAIKAVGSALRLR-TADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYL 370
             C GLPLA+  +G A+  + T  EW  A++ L N+   K  G+++    +   LKFSYD L
Sbjct:   343 CHGLPLALNVIGKAMVCKETVQEWRHAINVL-NSPGHKFPGMEER---ILPILKFSYDSL 398

Query:   371 -NGE 373
              NGE
Sbjct:   399 KNGE 402

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 330 (121.2 bits), Expect = 2.8e-30, Sum P(2) = 2.8e-30
 Identities = 81/268 (30%), Positives = 140/268 (52%)

Query:   113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN 171
             +E P        +  E A N+++E    D   ++GLHG+GGVGKTTL K + N+  +   
Sbjct:   146 EERPTQPTIGQEDMLEKAWNRLME----DGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGG 201

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWA---LTEKDEEDRADRLRLMFSESKSRKILV 228
              FD V    VS+   I  +Q ++ + L         K+E D+A  +  +    K ++ ++
Sbjct:   202 TFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVL---KGKRFVL 258

Query:   229 ILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLL 288
             +LDD+W+++DLE IGIP     N CK+  TTR ++VC  MG    ++++ L+  +  +L 
Sbjct:   259 MLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELF 318

Query:   289 RKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQNAK 345
             +   G +   +D  + ++++ VA +C+GLPLA+  +G  +  +T   EW  A+     + 
Sbjct:   319 KNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSA 378

Query:   346 LDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
                 E  D  ++ +   LK+SYD L  E
Sbjct:   379 A---EFSDMQNK-ILPILKYSYDSLGDE 402

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 344 (126.2 bits), Expect = 4.0e-30, P = 4.0e-30
 Identities = 82/242 (33%), Positives = 136/242 (56%)

Query:   133 QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT---VSQDPSIIN 189
             +I + L  +  + +G+ G+GGVGKTTL + + N+LR+       G+     VS++     
Sbjct:   154 KIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPRE 213

Query:   190 VQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDR 249
             VQ ++ + L      ++ E++  R R+     K RK L+ILDDVWK +DL+ +GIP  + 
Sbjct:   214 VQKQIAERLDIDTQMEESEEKLAR-RIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEE 272

Query:   250 DNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVA 309
             +   K++LT+R  +VC  M  D  +++D L + +  +L  K+AG  V    +  ++K V+
Sbjct:   273 NKGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVS 332

Query:   310 DECKGLPLAIKAVGSALR-LRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYD 368
              EC GLPLAI  VG+A+R  +    WN  L KL  + +  I+ I++    ++  LK SYD
Sbjct:   333 QECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKS-VPWIKSIEEK---IFQPLKLSYD 388

Query:   369 YL 370
             +L
Sbjct:   389 FL 390

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 1.3e-29, P = 1.3e-29
 Identities = 81/268 (30%), Positives = 140/268 (52%)

Query:   113 KEMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL-RQNN 171
             +E P        E  E A N+++E    D   ++GLHG+GGVGKTTL K + N+  + ++
Sbjct:    35 EERPTQPTIGQEEMLEKAWNRLME----DRVGIMGLHGMGGVGKTTLFKKIHNKFAKMSS 90

Query:   172 IFDKVGIATVSQDPSIINVQSELVKSLGWA---LTEKDEEDRADRLRLMFSESKSRKILV 228
              FD V    VS+   +  +Q ++ + L         K+E D+A  +  +    K ++ ++
Sbjct:    91 RFDIVIWIVVSKGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVL---KGKRFVL 147

Query:   229 ILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLL 288
             +LDD+W+++DLE IG+P     N CK+  TTR Q+VC  MG    +++  L+  +  +L 
Sbjct:   148 MLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTRDQKVCGEMGDHKPMQVKCLEPEDAWELF 207

Query:   289 RKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLRT-ADEWNVALDKLQNAK 345
             +   G +   +D  + ++++ VA +C+GLPLA+  +G  +  +T   EW  A+D L  + 
Sbjct:   208 KNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETMASKTMVQEWEHAIDVLTRSA 267

Query:   346 LDKIEGIDKDSRGVYGCLKFSYDYLNGE 373
              +           +   LK+SYD L  E
Sbjct:   268 AE----FSNMGNKILPILKYSYDSLGDE 291

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 8.2e-29, P = 8.2e-29
 Identities = 89/265 (33%), Positives = 144/265 (54%)

Query:   114 EM-PIPRFFSSFETT-ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN- 170
             EM PI       ET  + A N++++    D    +GL+G+GGVGKTTL   + N L    
Sbjct:   146 EMRPIQPTIMGRETIFQRAWNRLMD----DGVGTMGLYGMGGVGKTTLLTQIHNTLHDTK 201

Query:   171 NIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADR-LRLMFSESKSRKILVI 229
             N  D V    VS D  I  +Q ++ + LG+   E +++  + + + ++   SK R +L +
Sbjct:   202 NGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVL-L 260

Query:   230 LDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLR 289
             LDD+WK++DL  IGIP   R+N CK++ TTR   VC RMG    +++  L   +  +L +
Sbjct:   261 LDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQ 320

Query:   290 KHAG-IDVADKT-MTDVSKRVADECKGLPLAIKAVGSALR-LRTADEWNVALDKLQNAKL 346
             +  G I +     + +++K+VA +C+GLPLA+  +G  +   R   EW+ A+D L +   
Sbjct:   321 EKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAA 380

Query:   347 DKIEGIDKDSRGVYGCLKFSYDYLN 371
             +   G+D     +   LK+SYD LN
Sbjct:   381 E-FSGMDDH---ILLILKYSYDNLN 401

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

Your Input: fgenesh4_pg.C_scaffold_216000017 cc-nbs-lrr resistance protein (1078 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	375
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-42
PLN03210	1153	PLN03210, PLN03210, Resistant to P	5e-08
smart00382	148	smart00382, AAA, ATPases associated with a variety	9e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.002

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

 Score =  149 bits (377), Expect = 3e-42
 Identities = 78/249 (31%), Positives = 129/249 (51%), Gaps = 17/249 (6%)

Query: 132 NQIIEALKKDS--TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIIN 189
             +IE L + S    +VG+ G+GGVGKTTLAK + N       FD V    VS+  +   
Sbjct: 6   EALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFR 65

Query: 190 VQSELVKSLG---WALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPV 246
           +Q ++++ LG       EK+E + A +++        ++ L++LDDVW++ D + IG+P 
Sbjct: 66  LQKDILQELGLDDSDWVEKNESELAVKIKEAL---LRKRFLLVLDDVWEKNDWDKIGVPF 122

Query: 247 GDRDNCCKILLTTRLQQVCYRMGC-DPRIKLDALDQAEGLDLLRKHAG--IDVADKTMTD 303
            D +N  ++++TTR + V  RMG      ++++L+  E  +L               + +
Sbjct: 123 PDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEE 182

Query: 304 VSKRVADECKGLPLAIKAVGSALRLR-TADEWNVALDKLQNAKLDKIEGIDKDSRGVYGC 362
           V+K + ++CKGLPLA+K +G  L  + T  EW   L++L N    ++ G D     V   
Sbjct: 183 VAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNN----ELAGRDGL-NEVLSI 237

Query: 363 LKFSYDYLN 371
           L  SYD L 
Sbjct: 238 LSLSYDNLP 246

Length = 285

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 54.5 bits (131), Expect = 5e-08
 Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 31/249 (12%)

Query: 138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR---QNNIF-DKVGIATV-----SQDPSII 188
           L+ +  +MVG+ G  G+GKTT+A+ + ++L    Q+++F D+  I+       S +P   
Sbjct: 202 LESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDY 261

Query: 189 NVQSELVKS-LGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVG 247
           N++  L ++ L   L +KD   +   L  M    K RK+L+ +DD+  +  L+ +     
Sbjct: 262 NMKLHLQRAFLSEILDKKDI--KIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQ 319

Query: 248 DRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLL-----RKHAGIDVADKTMT 302
              +  +I++ T+ +      G D   ++        L++      +K++  D       
Sbjct: 320 WFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPD----GFM 375

Query: 303 DVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGC 362
           +++  VA     LPL +  +GS LR R  ++W   L +L+N    KIE            
Sbjct: 376 ELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKT---------- 425

Query: 363 LKFSYDYLN 371
           L+ SYD LN
Sbjct: 426 LRVSYDGLN 434

syringae 6; Provisional. Length = 1153

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 42.0 bits (98), Expect = 9e-05
 Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 7/99 (7%)

Query: 144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT 203
           +++ + G  G GKTTLA+ +  +L         G   +  D   I  +      L     
Sbjct: 3   EVILIVGPPGSGKTTLARALAREL------GPPGGGVIYIDGEDILEEVLDQLLLIIVGG 56

Query: 204 EKDEEDRADRLRLMFSE-SKSRKILVILDDVWKELDLET 241
           +K       RLRL  +   K +  ++ILD++   LD E 
Sbjct: 57  KKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQ 95

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. Length = 148

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 38.3 bits (89), Expect = 0.002
 Identities = 24/125 (19%), Positives = 48/125 (38%), Gaps = 21/125 (16%)

Query: 128 ESACNQIIEALKKD---STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD 184
           E    ++++AL++        V L G  G GKT+L + +   L       K   A  +  
Sbjct: 6   EEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAG--KCDQAERNPP 63

Query: 185 PSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS----------------ESKSRKILV 228
            +      EL++ L   L  +    R   L  + +                 +++R +++
Sbjct: 64  YAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPLVL 123

Query: 229 ILDDV 233
           +LDD+
Sbjct: 124 VLDDL 128

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	375
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.47
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.42
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.39
PF05729	166	NACHT: NACHT domain	99.31
PRK04841	903	transcriptional regulator MalT; Provisional	99.29
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.28
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.23
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.15
PRK13342	413	recombination factor protein RarA; Reviewed	99.15
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.14
PRK06893	229	DNA replication initiation factor; Validated	99.06
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.0
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.99
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.99
PRK12402	337	replication factor C small subunit 2; Reviewed	98.99
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.95
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.95
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.94
PLN03025	319	replication factor C subunit; Provisional	98.94
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.93
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.93
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.93
KOG2028	554	consensus ATPase related to the helicase subunit o	98.91
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.91
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.91
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.9
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.89
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.88
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.87
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.86
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.85
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.84
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.83
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.83
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.83
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.82
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.82
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.81
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.81
PRK08084	235	DNA replication initiation factor; Provisional	98.8
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.8
PRK04195	482	replication factor C large subunit; Provisional	98.8
PF13173	128	AAA_14: AAA domain	98.79
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.78
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.78
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.76
PRK13341	725	recombination factor protein RarA/unknown domain f	98.75
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.74
cd01128	249	rho_factor Transcription termination factor rho is	98.73
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.73
PRK09087	226	hypothetical protein; Validated	98.72
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.7
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.7
PRK08727	233	hypothetical protein; Validated	98.69
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.69
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.69
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.68
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.67
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.66
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.63
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.63
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.61
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.61
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.6
PRK09376	416	rho transcription termination factor Rho; Provisio	98.6
PTZ00202	550	tuzin; Provisional	98.59
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.58
PRK05642	234	DNA replication initiation factor; Validated	98.56
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.56
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.56
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.55
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.55
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.54
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.5
PHA02544	316	44 clamp loader, small subunit; Provisional	98.5
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.5
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.49
PF14516	331	AAA_35: AAA-like domain	98.49
TIGR00767	415	rho transcription termination factor Rho. Members	98.47
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.46
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.46
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.42
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.4
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.4
CHL00181	287	cbbX CbbX; Provisional	98.37
COG3899	849	Predicted ATPase [General function prediction only	98.34
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.32
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.31
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.3
PRK10865	857	protein disaggregation chaperone; Provisional	98.28
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.28
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.28
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.28
PRK06620	214	hypothetical protein; Validated	98.25
CHL00095	821	clpC Clp protease ATP binding subunit	98.24
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.24
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.22
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.22
COG3903	414	Predicted ATPase [General function prediction only	98.21
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.2
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.18
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.18
CHL00176	638	ftsH cell division protein; Validated	98.18
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.13
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.13
smart00382	148	AAA ATPases associated with a variety of cellular	98.13
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.09
PF00004	132	AAA: ATPase family associated with various cellula	98.08
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.06
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.06
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.06
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.06
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.05
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.04
CHL00195	489	ycf46 Ycf46; Provisional	98.04
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.04
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.03
PRK12422	445	chromosomal replication initiation protein; Provis	98.02
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.0
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.99
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.99
PRK12608	380	transcription termination factor Rho; Provisional	97.98
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.98
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.97
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.95
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.95
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.92
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.92
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.91
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.91
PRK10536	262	hypothetical protein; Provisional	97.9
PRK08181	269	transposase; Validated	97.9
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.88
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.88
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.87
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.86
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.86
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.85
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.85
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.85
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.84
PRK08118	167	topology modulation protein; Reviewed	97.83
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.81
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.8
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.8
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.8
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.78
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.77
PRK08116	268	hypothetical protein; Validated	97.76
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.73
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.71
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.71
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.7
PRK07261	171	topology modulation protein; Provisional	97.69
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.69
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.66
cd03246	173	ABCC_Protease_Secretion This family represents the	97.66
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.65
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.63
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.63
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.62
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.6
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	97.59
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.59
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.56
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.56
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.56
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.55
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.52
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.52
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.51
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.51
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.49
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.49
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.48
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.48
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.47
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.46
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.46
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.45
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.45
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.45
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.45
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.44
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.44
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.42
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.42
PRK04132	846	replication factor C small subunit; Provisional	97.42
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.41
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.39
PRK09183	259	transposase/IS protein; Provisional	97.39
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.39
PRK10867	433	signal recognition particle protein; Provisional	97.37
PRK08939	306	primosomal protein DnaI; Reviewed	97.35
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.35
PRK06526	254	transposase; Provisional	97.35
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.35
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.34
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.34
TIGR00959	428	ffh signal recognition particle protein. This mode	97.34
PRK06696	223	uridine kinase; Validated	97.33
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	97.33
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.33
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.33
PRK04296	190	thymidine kinase; Provisional	97.32
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.32
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.32
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.31
PRK10865	857	protein disaggregation chaperone; Provisional	97.3
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.29
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.29
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.27
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.26
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.26
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.26
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.25
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.24
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	97.24
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.23
PRK00409	782	recombination and DNA strand exchange inhibitor pr	97.23
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	97.23
COG0488	530	Uup ATPase components of ABC transporters with dup	97.22
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.22
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.22
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.21
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.21
PRK07952	244	DNA replication protein DnaC; Validated	97.19
COG0488	530	Uup ATPase components of ABC transporters with dup	97.18
PRK10416	318	signal recognition particle-docking protein FtsY;	97.17
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.17
PRK05541	176	adenylylsulfate kinase; Provisional	97.17
PRK12377	248	putative replication protein; Provisional	97.17
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.16
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	97.16
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.16
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.16
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.15
PTZ00035	337	Rad51 protein; Provisional	97.15
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.14
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.14
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.13
PRK15455	644	PrkA family serine protein kinase; Provisional	97.12
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.12
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.12
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.12
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.11
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.11
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.11
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.1
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	97.1
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	97.09
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.08
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.07
PRK06547	172	hypothetical protein; Provisional	97.07
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.07
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.06
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.05
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.04
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.04
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.03
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.03
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	97.03
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.03
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.02
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.02
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	97.02
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.02
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.01
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.01
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.0
PRK05480	209	uridine/cytidine kinase; Provisional	97.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.99
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.99
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.99
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.98
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.98
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.98
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.98
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.98
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.98
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	96.96
COG3910	233	Predicted ATPase [General function prediction only	96.96
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.96
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.96
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.95
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.94
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.94
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.94
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.93
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.93
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.92
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.91
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.91
COG4181	228	Predicted ABC-type transport system involved in ly	96.91
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.9
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.89
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	96.89
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.88
PRK14974	336	cell division protein FtsY; Provisional	96.87
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.87
PHA00729	226	NTP-binding motif containing protein	96.86
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.86
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.86
PRK08233	182	hypothetical protein; Provisional	96.86
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	96.85
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.85
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.84
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.84
PTZ00301	210	uridine kinase; Provisional	96.84
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.83
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.83
PRK07667	193	uridine kinase; Provisional	96.83
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.82
CHL00095	821	clpC Clp protease ATP binding subunit	96.82
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.82
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.81
PRK06921	266	hypothetical protein; Provisional	96.81
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.81
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.8
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.79
PRK13409	590	putative ATPase RIL; Provisional	96.79
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.78
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.77
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.76
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.76
PRK12678	672	transcription termination factor Rho; Provisional	96.76
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.76
PRK06762	166	hypothetical protein; Provisional	96.75
PRK09354	349	recA recombinase A; Provisional	96.75
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.75
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.75
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.75
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.74
PRK13409	590	putative ATPase RIL; Provisional	96.73
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.73
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.72
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	96.72
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.71
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.7
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.68
PTZ00088	229	adenylate kinase 1; Provisional	96.68
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.68
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.66
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.66
PRK08149	428	ATP synthase SpaL; Validated	96.65
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.65
PRK13531	498	regulatory ATPase RavA; Provisional	96.64
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.64
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.64
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	96.64
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.64
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.63
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.62
PRK03839	180	putative kinase; Provisional	96.62
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.62
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.62
PF13245	76	AAA_19: Part of AAA domain	96.62
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.61
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	96.61
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	96.6
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.6
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.6
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	96.59
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.59
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.58
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.58
PRK13765	637	ATP-dependent protease Lon; Provisional	96.57
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.57
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.56
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.56
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.55
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.55
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	96.54
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.54
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.54
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.54
COG1123	539	ATPase components of various ABC-type transport sy	96.54
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.54
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.53
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.53
PRK06936	439	type III secretion system ATPase; Provisional	96.53
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.52
PRK06835	329	DNA replication protein DnaC; Validated	96.52
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.52
PRK10522	547	multidrug transporter membrane component/ATP-bindi	96.52
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.52
PRK00300	205	gmk guanylate kinase; Provisional	96.51
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.51
PRK05922	434	type III secretion system ATPase; Validated	96.51
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.5
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.5
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	96.5
COG1127	263	Ttg2A ABC-type transport system involved in resist	96.5
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	96.49
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.49
PRK00131	175	aroK shikimate kinase; Reviewed	96.49
PRK03846	198	adenylylsulfate kinase; Provisional	96.49
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.49
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	96.48
COG4988	559	CydD ABC-type transport system involved in cytochr	96.48
PRK04040	188	adenylate kinase; Provisional	96.47
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	96.46
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.46
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.45
PLN03211	659	ABC transporter G-25; Provisional	96.45
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.44
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.44
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	96.42
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.41
CHL00060	494	atpB ATP synthase CF1 beta subunit	96.4
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.4
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	96.39
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.39
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.38
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.38
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.38
PRK06067	234	flagellar accessory protein FlaH; Validated	96.36
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	96.36
PRK00889	175	adenylylsulfate kinase; Provisional	96.36
PRK06217	183	hypothetical protein; Validated	96.35
PRK14527	191	adenylate kinase; Provisional	96.35
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.35
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.34
PRK07594	433	type III secretion system ATPase SsaN; Validated	96.33
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.32
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.32
PRK00625	173	shikimate kinase; Provisional	96.32
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.32
CHL00206	2281	ycf2 Ycf2; Provisional	96.32
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.32
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.31
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.3
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.29
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.29
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.29
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.28
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.27
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.26
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	96.26
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.26
PRK14530	215	adenylate kinase; Provisional	96.26
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.26
PTZ00185	574	ATPase alpha subunit; Provisional	96.25
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.25
PRK09825	176	idnK D-gluconate kinase; Provisional	96.23
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.23
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.23
PRK09099	441	type III secretion system ATPase; Provisional	96.23
PRK04196	460	V-type ATP synthase subunit B; Provisional	96.23
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.23
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	96.22
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	96.22
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.22
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.22
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.21
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.21
PRK13949	169	shikimate kinase; Provisional	96.21
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.2
PRK14737	186	gmk guanylate kinase; Provisional	96.19
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.19
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.19
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.19
COG4586	325	ABC-type uncharacterized transport system, ATPase	96.18
COG4136	213	ABC-type uncharacterized transport system, ATPase	96.18
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.17
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.17
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.17
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.16
PRK05439	311	pantothenate kinase; Provisional	96.16
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	96.15
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.15
PRK00279	215	adk adenylate kinase; Reviewed	96.15
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.13
PRK14738	206	gmk guanylate kinase; Provisional	96.12
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.11
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.1
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.1
PRK04328	249	hypothetical protein; Provisional	96.09
PF07726	131	AAA_3: ATPase family associated with various cellu	96.09
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.09
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.09
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.09
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.09
PRK14529	223	adenylate kinase; Provisional	96.08
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.07
PRK07276	290	DNA polymerase III subunit delta'; Validated	96.07
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.07
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.06
cd03286	218	ABC_MSH6_euk MutS6 homolog in eukaryotes. The MutS	96.06
PHA02774	613	E1; Provisional	96.06
PRK05057	172	aroK shikimate kinase I; Reviewed	96.06
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.06

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.3e-50  Score=403.56  Aligned_cols=348  Identities=29%  Similarity=0.446  Sum_probs=280.3

Q ss_pred             HHHHHHHHHHHHHhhhchhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHH
Q 038205            8 ASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRTL   87 (375)
Q Consensus         8 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~~~Wl~~l~~~~~d~ed~   87 (375)
                      ++..++++.+.+..+...+       .+.++.+..|+..|..+++++++++.++.   ....+..|.+.++++.|++++.
T Consensus         5 ~s~~~~~~~~~l~~~~~~~-------~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~---~~~~~~~~~e~~~~~~~~~e~~   74 (889)
T KOG4658|consen    5 VSFGVEKLDQLLNRESECL-------DGKDNYILELKENLKALQSALEDLDAKRD---DLERRVNWEEDVGDLVYLAEDI   74 (889)
T ss_pred             EEEehhhHHHHHHHHHHHH-------hchHHHHHHHHHHHHHHHHHHHHHHhhcc---hHHHHHHHHHHHHHHHHHHHHH
Confidence            3444566666666665553       34446788889999999999999998765   7788999999999999999998


Q ss_pred             HHHHhhh------------------ccccCCCC-CCcchhccccccc------------------------c------CC
Q 038205           88 KAKIDKK------------------KSCFNGWY-PNWRFRYWMDKEM------------------------P------IP  118 (375)
Q Consensus        88 ~d~~~~~------------------~~~~~~~~-~~~~~r~~~~~~~------------------------~------~~  118 (375)
                      ++.+...                  +.|+.+.+ .....-+.+++++                        +      .|
T Consensus        75 ~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~  154 (889)
T KOG4658|consen   75 IWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRP  154 (889)
T ss_pred             HHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCC
Confidence            7655311                  11221111 1111112222222                        0      01


Q ss_pred             CCC-CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh-hcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          119 RFF-SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR-QNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       119 ~~~-~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      ... .. +|.+..++++.+.|..++.++++|+||||+||||||+.++|+.. +.++|+.++||+||+.++...++.+|+.
T Consensus       155 ~~~~~~-VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~  233 (889)
T KOG4658|consen  155 IQSESD-VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILE  233 (889)
T ss_pred             CCcccc-ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHH
Confidence            111 12 89999999999999988889999999999999999999999998 8999999999999999999999999999


Q ss_pred             HhCCCCCCCCH---HHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhh-hCCCC
Q 038205          197 SLGWALTEKDE---EDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYR-MGCDP  272 (375)
Q Consensus       197 ~l~~~~~~~~~---~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~-~~~~~  272 (375)
                      .++........   .+.+..+.+   .|.++||+|||||||+..+|+.++.++|...+||+|++|||++.||.. ++...
T Consensus       234 ~l~~~~~~~~~~~~~~~~~~i~~---~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~  310 (889)
T KOG4658|consen  234 RLGLLDEEWEDKEEDELASKLLN---LLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDY  310 (889)
T ss_pred             HhccCCcccchhhHHHHHHHHHH---HhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCc
Confidence            98764333333   455566666   999999999999999999999999999999999999999999999998 77788


Q ss_pred             cccCCCCChHHHHHHHHHHcCCC--CCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCC-CHHHHHHHHHHhhhcccCCC
Q 038205          273 RIKLDALDQAEGLDLLRKHAGID--VADKTMTDVSKRVADECKGLPLAIKAVGSALRLR-TADEWNVALDKLQNAKLDKI  349 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~--~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~-~~~~w~~~l~~l~~~~~~~~  349 (375)
                      .++++.|+++|||.||++.+|..  ...+.++++|++++++|+|+|||++++|+.|+.| +.++|+++.+.+......+.
T Consensus       311 ~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~  390 (889)
T KOG4658|consen  311 PIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADF  390 (889)
T ss_pred             cccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCC
Confidence            99999999999999999999843  3345589999999999999999999999999998 88899999999988755555


Q ss_pred             CCCCCCchhhhhhhhhhccCCCC
Q 038205          350 EGIDKDSRGVYGCLKFSYDYLNG  372 (375)
Q Consensus       350 ~~~~~~~~~~~~~l~~sy~~L~~  372 (375)
                      ++   ....++++|++|||+||+
T Consensus       391 ~~---~~~~i~~iLklSyd~L~~  410 (889)
T KOG4658|consen  391 SG---MEESILPILKLSYDNLPE  410 (889)
T ss_pred             Cc---hhhhhHHhhhccHhhhhH
Confidence            33   346799999999999994

>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=100.00  E-value=5.3e-39  Score=293.03  Aligned_cols=240  Identities=37%  Similarity=0.605  Sum_probs=193.7

Q ss_pred             hHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC-
Q 038205          127 TESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT-  203 (375)
Q Consensus       127 r~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-  203 (375)
                      |+.++++|.++|..  ++.++|+|+|+||+||||||..++++.....+|+.++|+.++...+...++..|+.+++.... 
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78899999999987  778999999999999999999999997777899999999999999999999999999987632 


Q ss_pred             ---CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhhhCC-CCcccCCCC
Q 038205          204 ---EKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGC-DPRIKLDAL  279 (375)
Q Consensus       204 ---~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~~-~~~~~l~~L  279 (375)
                         ..+.......+.+   .+.++++||||||||+...|+.+...++....|++||||||+..++..++. ...+++++|
T Consensus        81 ~~~~~~~~~~~~~l~~---~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L  157 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRE---LLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPL  157 (287)
T ss_dssp             SSCCSSHHHHHHHHHH---HHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS-
T ss_pred             cccccccccccccchh---hhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               3455667777777   999999999999999999998888777777789999999999998877665 578999999


Q ss_pred             ChHHHHHHHHHHcCCCC--CCCCchHHHHHHHHHcCCchhHHHHHHHHhcCC-CHHHHHHHHHHhhhcccCCCCCCCCCc
Q 038205          280 DQAEGLDLLRKHAGIDV--ADKTMTDVSKRVADECKGLPLAIKAVGSALRLR-TADEWNVALDKLQNAKLDKIEGIDKDS  356 (375)
Q Consensus       280 ~~~e~~~Lf~~~~~~~~--~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~~  356 (375)
                      +.+++++||.+.++...  .++.+.+.+++|+++|+|+||||+++|++|+.+ +..+|+++++++...... ..   ...
T Consensus       158 ~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~---~~~  233 (287)
T PF00931_consen  158 SEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SR---DYD  233 (287)
T ss_dssp             -HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SS---GSC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cc---ccc
Confidence            99999999999998433  345667889999999999999999999999755 778999999988876432 11   135


Q ss_pred             hhhhhhhhhhccCCCCC
Q 038205          357 RGVYGCLKFSYDYLNGE  373 (375)
Q Consensus       357 ~~~~~~l~~sy~~L~~~  373 (375)
                      .+++.++.+||+.||++
T Consensus       234 ~~~~~~l~~s~~~L~~~  250 (287)
T PF00931_consen  234 RSVFSALELSYDSLPDE  250 (287)
T ss_dssp             HHHHHHHHHHHHSSHTC
T ss_pred             ccccccceechhcCCcc
Confidence            78999999999999985

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=100.00  E-value=5.4e-36  Score=317.26  Aligned_cols=320  Identities=20%  Similarity=0.265  Sum_probs=228.6

Q ss_pred             hhhchhcchhHHHHHHHHHHH---HHHHHHHHHHH--------HHHHHHhhhhcccccHHHHHHHHHHHHHHHHHH----
Q 038205           21 KQARYLFCFNSIVKELEDKET---NLKKEKDGINE--------RVEQERQKHCAIVVEKDVEKWLADVVKEMADVR----   85 (375)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~---~l~~~l~~i~~--------~l~~a~~~~~~~~~~~~~~~Wl~~l~~~~~d~e----   85 (375)
                      +++.+.||++++++.++..-+   .+-..++.+.+        ...+|-.+.......+.++.|...+.+++.-+-    
T Consensus        76 ~ya~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~  155 (1153)
T PLN03210         76 NYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHSQ  155 (1153)
T ss_pred             CcccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhCcCceecC
Confidence            688899999999998876432   12222222221        233333322222356789999999998862110    


Q ss_pred             ------HHHHHHhhhccccCCCCCCcchhccccccc--cCCCCCCCccchHHHHHHHHHHHh--cCCCcEEEEEcCCCch
Q 038205           86 ------TLKAKIDKKKSCFNGWYPNWRFRYWMDKEM--PIPRFFSSFETTESACNQIIEALK--KDSTKMVGLHGLGGVG  155 (375)
Q Consensus        86 ------d~~d~~~~~~~~~~~~~~~~~~r~~~~~~~--~~~~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiG  155 (375)
                            ++++++...                +..++  ..+..+..++|++..++++..++.  .+++++|+|+||||+|
T Consensus       156 ~~~~E~~~i~~Iv~~----------------v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiG  219 (1153)
T PLN03210        156 NWPNEAKMIEEIAND----------------VLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIG  219 (1153)
T ss_pred             CCCCHHHHHHHHHHH----------------HHHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCc
Confidence                  122222211                00000  123456789999999999999874  4568999999999999


Q ss_pred             HHHHHHHHHhhhhhcCCccEEEEEEe---cCC-----------CC-hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh
Q 038205          156 KTTLAKFVGNQLRQNNIFDKVGIATV---SQD-----------PS-IINVQSELVKSLGWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       156 KTtLa~~v~~~~~~~~~f~~~~wv~~---~~~-----------~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      |||||+.+|+...  ..|+..+|+..   ...           .. ...+..+++..+....... ... ...+++   .
T Consensus       220 KTTLA~~l~~~l~--~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~-~~~-~~~~~~---~  292 (1153)
T PLN03210        220 KTTIARALFSRLS--RQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIK-IYH-LGAMEE---R  292 (1153)
T ss_pred             hHHHHHHHHHHHh--hcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcc-cCC-HHHHHH---H
Confidence            9999999999876  55888777632   111           01 1233444444432211110 001 133445   8


Q ss_pred             cCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCC-CCC
Q 038205          221 SKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDV-ADK  299 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~-~~~  299 (375)
                      +.++|+||||||||+..+|+.+.....+.++||+||||||+..++..++..++|+++.++.++||+||+++||... .+.
T Consensus       293 L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~  372 (1153)
T PLN03210        293 LKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPD  372 (1153)
T ss_pred             HhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcH
Confidence            8899999999999999999988776677788999999999999998777778999999999999999999998543 344


Q ss_pred             CchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhhhcccCCCCCCCCCchhhhhhhhhhccCCCCC
Q 038205          300 TMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGE  373 (375)
Q Consensus       300 ~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~  373 (375)
                      ++.+++++|+++|+|+|||++++|++|+.++..+|+.++++|+....          ..+..+|++||+.||++
T Consensus       373 ~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~----------~~I~~~L~~SYd~L~~~  436 (1153)
T PLN03210        373 GFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLD----------GKIEKTLRVSYDGLNNK  436 (1153)
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCcc----------HHHHHHHHHhhhccCcc
Confidence            67889999999999999999999999999999999999999876321          34899999999999864

syringae 6; Provisional

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

Probab=99.47  E-value=2.1e-11  Score=110.04  Aligned_cols=197  Identities=16%  Similarity=0.183  Sum_probs=123.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-  219 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-  219 (375)
                      ...+.+.|+|++|+||||+++.+++...... + ...|+ +....+..+++..++..++.+............+...+. 
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIE  117 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            3456899999999999999999998876321 1 12233 333456778888999888776544333333333333221 


Q ss_pred             -hcCCCcEEEEEeCCCCcc--cccccCC--CC-CCCCCCcEEEEEeCChhHHhhhC----------CCCcccCCCCChHH
Q 038205          220 -ESKSRKILVILDDVWKEL--DLETIGI--PV-GDRDNCCKILLTTRLQQVCYRMG----------CDPRIKLDALDQAE  283 (375)
Q Consensus       220 -~l~~kr~LlVlDdv~~~~--~~~~l~~--~l-~~~~~gs~IivTTr~~~v~~~~~----------~~~~~~l~~L~~~e  283 (375)
                       ...+++++||+||++...  .++.+..  .+ ........|++|.... ....+.          ....+.+.+++.+|
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence             236788999999998753  3333321  11 1122233555665432 221111          12357899999999


Q ss_pred             HHHHHHHHcC---CCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc------C-C--CHHHHHHHHHHh
Q 038205          284 GLDLLRKHAG---IDVADKTMTDVSKRVADECKGLPLAIKAVGSALR------L-R--TADEWNVALDKL  341 (375)
Q Consensus       284 ~~~Lf~~~~~---~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~------~-~--~~~~w~~~l~~l  341 (375)
                      ..+++...+.   ......-..+..+.|++.|+|.|..|+.++..+.      + +  +.+.++.++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~  266 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI  266 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence            9999987763   1111223357889999999999999999887762      1 1  455566655543

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

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

Probab=99.42  E-value=5.8e-13  Score=117.30  Aligned_cols=195  Identities=18%  Similarity=0.236  Sum_probs=102.4

Q ss_pred             ccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH---------
Q 038205          124 FETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL---------  194 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i---------  194 (375)
                      |+||+.++++|.+++..+..+.+.|+|+.|+|||+|++.+.+.....+ + ..+|+....... ......+         
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~-~~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESN-ESSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSH-HHHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchh-hhHHHHHHHHHHHHHH
Confidence            689999999999999887788999999999999999999999885321 1 223333322221 1111111         


Q ss_pred             -HHHhCCCCC--------CCCHHHHHHHHHHHhhhcC--CCcEEEEEeCCCCcc-ccc-------ccCCCCC--CCCCCc
Q 038205          195 -VKSLGWALT--------EKDEEDRADRLRLMFSESK--SRKILVILDDVWKEL-DLE-------TIGIPVG--DRDNCC  253 (375)
Q Consensus       195 -~~~l~~~~~--------~~~~~~~~~~l~~~~~~l~--~kr~LlVlDdv~~~~-~~~-------~l~~~l~--~~~~gs  253 (375)
                       ...+.....        ..........+..++..+.  +++++||+||+.... ...       .+...+.  ......
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence             111211000        0111222222333222333  345999999987554 111       1111111  123344


Q ss_pred             EEEEEeCChhHHhh--------hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          254 KILLTTRLQQVCYR--------MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       254 ~IivTTr~~~v~~~--------~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      .+|+++.+..+...        .+....+.+++|+.+++++++...+.....-+.-.+..++|+..+||+|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            55566655544433        233345899999999999999987542210122356679999999999999865

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.39  E-value=2.4e-11  Score=115.81  Aligned_cols=219  Identities=17%  Similarity=0.110  Sum_probs=134.5

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      ..+.||++++++|...+..    ...+.+.|+|++|+|||++++.+++........-..++++.....+...++..++.+
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~  109 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQ  109 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHH
Confidence            5688999999999998733    345678999999999999999999988754323345666666667788899999998


Q ss_pred             hCCC-C--CCCCHHHHHHHHHHHhhhcC--CCcEEEEEeCCCCcc------cccccCCCCCCC-CCCcEEEEEeCChhHH
Q 038205          198 LGWA-L--TEKDEEDRADRLRLMFSESK--SRKILVILDDVWKEL------DLETIGIPVGDR-DNCCKILLTTRLQQVC  265 (375)
Q Consensus       198 l~~~-~--~~~~~~~~~~~l~~~~~~l~--~kr~LlVlDdv~~~~------~~~~l~~~l~~~-~~gs~IivTTr~~~v~  265 (375)
                      +... .  ...+..+....+.+   .+.  +++.+||||+++...      .+..+...+... +....+|.++....+.
T Consensus       110 l~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        110 LFGHPPPSSGLSFDELFDKIAE---YLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFL  186 (394)
T ss_pred             hcCCCCCCCCCCHHHHHHHHHH---HHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcchh
Confidence            8642 1  12233444444444   443  467899999997642      222222111111 1123366666654332


Q ss_pred             hhhC-------CCCcccCCCCChHHHHHHHHHHcCCCC-CCCCchHHHHHHHHH----cCCchhHHHHHHHHhc------
Q 038205          266 YRMG-------CDPRIKLDALDQAEGLDLLRKHAGIDV-ADKTMTDVSKRVADE----CKGLPLAIKAVGSALR------  327 (375)
Q Consensus       266 ~~~~-------~~~~~~l~~L~~~e~~~Lf~~~~~~~~-~~~~~~~~~~~i~~~----~~glPlai~~i~~~L~------  327 (375)
                      ....       ....+.+.+++.++..+++..++.... ...-..+..+.+++.    .|..+.|+..+-....      
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence            2211       124678999999999999998763110 011112334444444    4557777776643321      


Q ss_pred             -CC-CHHHHHHHHHHhhh
Q 038205          328 -LR-TADEWNVALDKLQN  343 (375)
Q Consensus       328 -~~-~~~~w~~~l~~l~~  343 (375)
                       .. +.+....+++.+..
T Consensus       267 ~~~I~~~~v~~a~~~~~~  284 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSEI  284 (394)
T ss_pred             CCCcCHHHHHHHHHHHHH
Confidence             12 56777777776533

>PF05729 NACHT: NACHT domain

Probab=99.31  E-value=1.3e-11  Score=102.74  Aligned_cols=142  Identities=18%  Similarity=0.223  Sum_probs=90.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCC----ccEEEEEEecCCCChh---HHHHHHHHHhCCCCCCCCHHHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNI----FDKVGIATVSQDPSII---NVQSELVKSLGWALTEKDEEDRADRLRL  216 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~l~~  216 (375)
                      +++.|+|.+|+||||+++.++........    +...+|..........   .+...+..........     ....+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~-----~~~~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAP-----IEELLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhh-----hHHHHHH
Confidence            57899999999999999999988876543    3456666665443322   3444444443221111     1112222


Q ss_pred             HhhhcCCCcEEEEEeCCCCccc---------ccccCCC-CCC-CCCCcEEEEEeCChhH---HhhhCCCCcccCCCCChH
Q 038205          217 MFSESKSRKILVILDDVWKELD---------LETIGIP-VGD-RDNCCKILLTTRLQQV---CYRMGCDPRIKLDALDQA  282 (375)
Q Consensus       217 ~~~~l~~kr~LlVlDdv~~~~~---------~~~l~~~-l~~-~~~gs~IivTTr~~~v---~~~~~~~~~~~l~~L~~~  282 (375)
                      +  ....++++||||++++...         +..+... +.. ..++++++||+|....   .........+.+.+|+++
T Consensus        76 ~--~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   76 L--LEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             H--HHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHH
Confidence            1  2356899999999875422         1111111 111 2467899999998665   333444468999999999


Q ss_pred             HHHHHHHHHc
Q 038205          283 EGLDLLRKHA  292 (375)
Q Consensus       283 e~~~Lf~~~~  292 (375)
                      +..+++++.+
T Consensus       154 ~~~~~~~~~f  163 (166)
T PF05729_consen  154 DIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.29  E-value=9.6e-11  Score=123.50  Aligned_cols=202  Identities=15%  Similarity=0.196  Sum_probs=128.7

Q ss_pred             cccCCCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHH
Q 038205          114 EMPIPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQS  192 (375)
Q Consensus       114 ~~~~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~  192 (375)
                      |+.+|+.....+-|....+.|-.   ....+++.|.||+|.||||++..+...      ++.++|+++.. +.++..+..
T Consensus         6 k~~~p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~   76 (903)
T PRK04841          6 KLSRPVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFAS   76 (903)
T ss_pred             ccCCCCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHH
Confidence            33346666777888877776643   235689999999999999999998752      22588999964 446666767


Q ss_pred             HHHHHhCCCCCCC-----------CHHHHHHHHHHHhhhcC--CCcEEEEEeCCCCcc--ccc-ccCCCCCCCCCCcEEE
Q 038205          193 ELVKSLGWALTEK-----------DEEDRADRLRLMFSESK--SRKILVILDDVWKEL--DLE-TIGIPVGDRDNCCKIL  256 (375)
Q Consensus       193 ~i~~~l~~~~~~~-----------~~~~~~~~l~~~~~~l~--~kr~LlVlDdv~~~~--~~~-~l~~~l~~~~~gs~Ii  256 (375)
                      .++..++......           ........+..++..+.  +.+++|||||+...+  ... .+...+.....+.++|
T Consensus        77 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv  156 (903)
T PRK04841         77 YLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLV  156 (903)
T ss_pred             HHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEE
Confidence            7777764211110           00111222333333333  689999999997542  112 2222223334567898


Q ss_pred             EEeCChhHH---hhhCCCCcccCC----CCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcC
Q 038205          257 LTTRLQQVC---YRMGCDPRIKLD----ALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRL  328 (375)
Q Consensus       257 vTTr~~~v~---~~~~~~~~~~l~----~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~  328 (375)
                      ||||...-.   ..........+.    +|+.+|+.+||....+...    -......|.+.|+|.|+++..++..+..
T Consensus       157 ~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        157 VLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             EEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            999974211   111112234455    9999999999988776432    2456788999999999999988877654

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

Probab=99.28  E-value=1.3e-10  Score=105.51  Aligned_cols=224  Identities=14%  Similarity=0.135  Sum_probs=133.1

Q ss_pred             CCCCCCccchHHHH---HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESAC---NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|.+..+   .-|.+.+..+...-.-+|||+|+||||||+.+.......       |..++.-.+-..-++++
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~-------f~~~sAv~~gvkdlr~i   92 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAA-------FEALSAVTSGVKDLREI   92 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCc-------eEEeccccccHHHHHHH
Confidence            77778888887765   445666777888888899999999999999999976633       33444433333344444


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEE--EeCChhHH---hh
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILL--TTRLQQVC---YR  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Iiv--TTr~~~v~---~~  267 (375)
                      ++...               ..   ...+++.+|++|+|..-  .+-+.+   +|.-.+|.-|+|  ||.++...   ..
T Consensus        93 ~e~a~---------------~~---~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~AL  151 (436)
T COG2256          93 IEEAR---------------KN---RLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPAL  151 (436)
T ss_pred             HHHHH---------------HH---HhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHH
Confidence            33210               11   44589999999999753  344444   344455666666  66665442   22


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcCC-----CCCCCCc-hHHHHHHHHHcCCchhHH-HH--HHHHhc-CC---CHHHH
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAGI-----DVADKTM-TDVSKRVADECKGLPLAI-KA--VGSALR-LR---TADEW  334 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~-----~~~~~~~-~~~~~~i~~~~~glPlai-~~--i~~~L~-~~---~~~~w  334 (375)
                      .+...++.+++|+.++...++.+-+..     ......+ ++..+-++..++|---++ +.  ++..+. ..   ..+..
T Consensus       152 lSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l  231 (436)
T COG2256         152 LSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELL  231 (436)
T ss_pred             hhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHH
Confidence            344478999999999999999984321     1111112 456677888888764432 22  222222 22   12333


Q ss_pred             HHHHHHhhhcccCCCCCCCCCchhhhhhhhhhccCCCCC
Q 038205          335 NVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGE  373 (375)
Q Consensus       335 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~  373 (375)
                      ++.+.+   . ....+.-.+...++..+|.-|...=+++
T Consensus       232 ~~~l~~---~-~~~~Dk~gD~hYdliSA~hKSvRGSD~d  266 (436)
T COG2256         232 EEILQR---R-SARFDKDGDAHYDLISALHKSVRGSDPD  266 (436)
T ss_pred             HHHHhh---h-hhccCCCcchHHHHHHHHHHhhccCCcC
Confidence            333322   1 1122222234567777777776654444

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.23  E-value=8e-10  Score=104.29  Aligned_cols=218  Identities=18%  Similarity=0.195  Sum_probs=129.6

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC-Cc---cEEEEEEecCCCChhHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN-IF---DKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~f---~~~~wv~~~~~~~~~~~~~~  193 (375)
                      ..++||++++++|..++..    ...+.+.|+|++|+|||++++.+++...... ..   -..+|+......+...++..
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            4688999999999999853    3456899999999999999999998765321 11   23566776666677889999


Q ss_pred             HHHHhC---CCCCC--CCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc-c----ccccCCCC-CCC--CCCcEEEEE
Q 038205          194 LVKSLG---WALTE--KDEEDRADRLRLMFSES--KSRKILVILDDVWKEL-D----LETIGIPV-GDR--DNCCKILLT  258 (375)
Q Consensus       194 i~~~l~---~~~~~--~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~-~----~~~l~~~l-~~~--~~gs~IivT  258 (375)
                      ++.++.   .....  .+..+....+.+   .+  .+++++||||+++... .    +..+.... ...  +....+|.+
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~---~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i  171 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYK---ELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGI  171 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHH---HHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEE
Confidence            999883   32221  122333333333   44  3568899999998651 1    22221110 111  123345555


Q ss_pred             eCChhHHhhhC-----C--CCcccCCCCChHHHHHHHHHHcC---CC-CCCCCchHHHHHHHHHcCCchhHH-HHHHHHh
Q 038205          259 TRLQQVCYRMG-----C--DPRIKLDALDQAEGLDLLRKHAG---ID-VADKTMTDVSKRVADECKGLPLAI-KAVGSAL  326 (375)
Q Consensus       259 Tr~~~v~~~~~-----~--~~~~~l~~L~~~e~~~Lf~~~~~---~~-~~~~~~~~~~~~i~~~~~glPlai-~~i~~~L  326 (375)
                      |........+.     .  ...+.+.+++.++..+++..++.   .. ...++..+....++..+.|.|-.+ ..+-...
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~  251 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAG  251 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            55433221111     1  24688999999999999998763   11 112232334455666777888543 3332211


Q ss_pred             ----c---CC-CHHHHHHHHHHhh
Q 038205          327 ----R---LR-TADEWNVALDKLQ  342 (375)
Q Consensus       327 ----~---~~-~~~~w~~~l~~l~  342 (375)
                          .   .. +.+..+.+.+.+.
T Consensus       252 ~~a~~~~~~~it~~~v~~a~~~~~  275 (365)
T TIGR02928       252 EIAEREGAERVTEDHVEKAQEKIE  275 (365)
T ss_pred             HHHHHcCCCCCCHHHHHHHHHHHH
Confidence                1   12 5666666665553

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.15  E-value=1.6e-09  Score=99.64  Aligned_cols=187  Identities=14%  Similarity=0.141  Sum_probs=109.6

Q ss_pred             CCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          121 FSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      +..|+|+++.++.|..++..     ...+.+.++||+|+|||+||+.+++.....  +   .....+.... ...+...+
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~-~~~l~~~l   76 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEK-PGDLAAIL   76 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcC-chhHHHHH
Confidence            46789999999999888852     335678899999999999999999877532  2   1121111111 11222223


Q ss_pred             HHhCCCC-------CCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhhh
Q 038205          196 KSLGWAL-------TEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRM  268 (375)
Q Consensus       196 ~~l~~~~-------~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~  268 (375)
                      ..++...       ...+ ....+.+..   .+.+.+..+|+++..+...+..   .++   +.+-|..||+...+...+
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~---~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l  146 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYP---AMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPL  146 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhH---HHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHH
Confidence            3332110       0001 112222333   4555556666666544444331   122   234555667764433221


Q ss_pred             -C-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHH
Q 038205          269 -G-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGS  324 (375)
Q Consensus       269 -~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~  324 (375)
                       + ....+.+++++.++..+++.+.+.... ..-..+....|++.|+|.|-.+..+..
T Consensus       147 ~sR~~~~~~l~~l~~~e~~~il~~~~~~~~-~~~~~~al~~ia~~~~G~pR~~~~ll~  203 (305)
T TIGR00635       147 RDRFGIILRLEFYTVEELAEIVSRSAGLLN-VEIEPEAALEIARRSRGTPRIANRLLR  203 (305)
T ss_pred             HhhcceEEEeCCCCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHHhCCCcchHHHHHH
Confidence             1 124678999999999999998876322 122256778999999999976654443

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.15  E-value=5.1e-10  Score=106.93  Aligned_cols=177  Identities=16%  Similarity=0.166  Sum_probs=109.8

Q ss_pred             CCCCCCccchHHHHHH---HHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACNQ---IIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~---l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|++..+..   |..++..+....+.++|++|+||||||+.+++....  .     |+.++........++.+
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~--~-----~~~l~a~~~~~~~ir~i   80 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDA--P-----FEALSAVTSGVKDLREV   80 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCC--C-----EEEEecccccHHHHHHH
Confidence            5667789999988766   888888777788999999999999999999887652  2     23232221111112222


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEE--EeCChhHH---hh
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILL--TTRLQQVC---YR  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Iiv--TTr~~~v~---~~  267 (375)
                      +...                ..  ....+++.+|++|+++..  .+.+.+...+.   .|..+++  ||.+....   ..
T Consensus        81 i~~~----------------~~--~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL  139 (413)
T PRK13342         81 IEEA----------------RQ--RRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPAL  139 (413)
T ss_pred             HHHH----------------HH--hhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHH
Confidence            2211                11  022457889999999864  23333333332   2344444  34443211   12


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcCCC-CCC-CCchHHHHHHHHHcCCchhHHHHH
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAGID-VAD-KTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~-~~~-~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      .+....+.+.+++.++...++.+.+... ... .-..+..+.|++.|+|.|..+..+
T Consensus       140 ~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~  196 (413)
T PRK13342        140 LSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNL  196 (413)
T ss_pred             hccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHH
Confidence            2233678999999999999999865421 111 223567788999999999766443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.14  E-value=2e-09  Score=99.90  Aligned_cols=191  Identities=16%  Similarity=0.118  Sum_probs=108.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..|+|+++.++.+..++..     ...+.+.|+|++|+||||||+.+++.....  +   .+...+ .......+.
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~-~~~~~~~l~   94 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGP-ALEKPGDLA   94 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEecc-cccChHHHH
Confidence            56778899999999998877742     335678999999999999999999987632  1   112111 111112223


Q ss_pred             HHHHHhCCCC----CCCC--HHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          193 ELVKSLGWAL----TEKD--EEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       193 ~i~~~l~~~~----~~~~--~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      .++..+....    ++.+  .....+.+..   .+.+.+..+++|+..+...+..   .++   +.+-|..||+...+..
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~---~~e~~~~~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~  165 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYP---AMEDFRLDIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTS  165 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHH---HHHhcceeeeeccCccccceee---cCC---CceEEeecCCcccCCH
Confidence            3333322110    0000  0111122222   3444444555554433222211   111   2344556666443332


Q ss_pred             hhC--CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHH
Q 038205          267 RMG--CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGS  324 (375)
Q Consensus       267 ~~~--~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~  324 (375)
                      .+.  ....+++++++.++..+++.+.+.... ..--.+....|++.|+|.|-.+..+..
T Consensus       166 ~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~ia~~~~G~pR~a~~~l~  224 (328)
T PRK00080        166 PLRDRFGIVQRLEFYTVEELEKIVKRSARILG-VEIDEEGALEIARRSRGTPRIANRLLR  224 (328)
T ss_pred             HHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHcCCCchHHHHHHH
Confidence            211  124689999999999999998876332 122256789999999999975555444

>PRK06893 DNA replication initiation factor; Validated

Probab=99.06  E-value=2.3e-09  Score=94.09  Aligned_cols=174  Identities=15%  Similarity=0.117  Sum_probs=102.5

Q ss_pred             CCCCCccchHHH--HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          119 RFFSSFETTESA--CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       119 ~~~~~~~gr~~~--~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      ..+..|++-+..  ...+.+.......+.+.|+|++|+|||+|++.+++.....  ...+.|+......   ...     
T Consensus        13 ~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~~---~~~-----   82 (229)
T PRK06893         13 ETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLSKSQ---YFS-----   82 (229)
T ss_pred             ccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHHHhh---hhh-----
Confidence            345566643322  2222222233345678999999999999999999987543  2344566543110   000     


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc---ccccc-cCCCCCC-CCCCcEEEE-EeCC---------
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE---LDLET-IGIPVGD-RDNCCKILL-TTRL---------  261 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~Iiv-TTr~---------  261 (375)
                                    ...+.    .+. +.-+|+|||++..   ..|.. +...+.. ...|+.+|+ |+..         
T Consensus        83 --------------~~~~~----~~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~  143 (229)
T PRK06893         83 --------------PAVLE----NLE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKL  143 (229)
T ss_pred             --------------HHHHh----hcc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccc
Confidence                          01111    222 3349999999863   33432 2222221 123556655 4443         


Q ss_pred             hhHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          262 QQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       262 ~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      +.+...+.....+++++++.++.++++++.+.... ..--.++.+-|++.+.|..-.+..+
T Consensus       144 ~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~-l~l~~~v~~~L~~~~~~d~r~l~~~  203 (229)
T PRK06893        144 PDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRG-IELSDEVANFLLKRLDRDMHTLFDA  203 (229)
T ss_pred             hhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHH
Confidence            46666666677899999999999999998886332 1222567788888888776655443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.00  E-value=3.8e-08  Score=92.43  Aligned_cols=194  Identities=20%  Similarity=0.203  Sum_probs=110.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+...+|.+..++.+...+..++ .+.+.++|+.|+||||+|+.+.+...-.....       ..+...-....++..
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~~~~   84 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKEIEK   84 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHHHhc
Confidence            6677888999999999999887765 45678999999999999999988764211000       000000001111111


Q ss_pred             HhCCCC------CCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SLGWAL------TEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l~~~~------~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      ......      .....++....+..+.. ...+++-++|+|+++...  .++.+...+.......++|++|.+ ..+..
T Consensus        85 ~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~  164 (363)
T PRK14961         85 GLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPK  164 (363)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhH
Confidence            100000      00111121111111000 123456699999998653  344444444433445677776654 33332


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      . .+....+++.+++.++..+.+.+.+.... ..--.+.++.|++.++|.|-.+
T Consensus       165 tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g-~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        165 TILSRCLQFKLKIISEEKIFNFLKYILIKES-IDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             HHHhhceEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            2 22236789999999999998887664221 1112456788999999988633

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.99  E-value=1.3e-08  Score=89.27  Aligned_cols=173  Identities=15%  Similarity=0.109  Sum_probs=104.0

Q ss_pred             CCCcc--chHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh
Q 038205          121 FSSFE--TTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL  198 (375)
Q Consensus       121 ~~~~~--gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  198 (375)
                      +..|+  +....+..+..++.......+.|+|++|+|||+||+.+++.....  ....+++..+.-.      ...    
T Consensus        14 ~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~------~~~----   81 (226)
T TIGR03420        14 FDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELA------QAD----   81 (226)
T ss_pred             hcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHH------HhH----
Confidence            34454  355677888887766667899999999999999999999876532  2334455433211      000    


Q ss_pred             CCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---cc-cccCCCCCC-CCCCcEEEEEeCCh---------hH
Q 038205          199 GWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---DL-ETIGIPVGD-RDNCCKILLTTRLQ---------QV  264 (375)
Q Consensus       199 ~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~IivTTr~~---------~v  264 (375)
                                      ..+++.+.+. -+|||||++...   .| ..+...+.. ...+..+|+||+..         .+
T Consensus        82 ----------------~~~~~~~~~~-~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L  144 (226)
T TIGR03420        82 ----------------PEVLEGLEQA-DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDL  144 (226)
T ss_pred             ----------------HHHHhhcccC-CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHH
Confidence                            0111123232 389999997543   22 223222211 12334788888743         22


Q ss_pred             HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHH
Q 038205          265 CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVG  323 (375)
Q Consensus       265 ~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~  323 (375)
                      ...+.....+++.+++.++...++...+.... .+--.+..+.|.+.+.|.|..+..+-
T Consensus       145 ~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~-~~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       145 RTRLAWGLVFQLPPLSDEEKIAALQSRAARRG-LQLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             HHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHHH
Confidence            23333346789999999999999987543111 11224566778888888888776553

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.99  E-value=6.7e-09  Score=102.67  Aligned_cols=183  Identities=17%  Similarity=0.184  Sum_probs=114.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  177 (375)
                      |..+..++|.+..++.|.+++..++ .+.+.++|+.|+||||+|+.+.+...-..                   .|..++
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dvi   91 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYV   91 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEE
Confidence            6677889999999999999998776 45668999999999999998887664211                   111122


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~  254 (375)
                      ++..+.+                    ...++..+.+..... -..++.-++|||+++...  .+..+...+..-....+
T Consensus        92 EIDAas~--------------------rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~  151 (830)
T PRK07003         92 EMDAASN--------------------RGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVK  151 (830)
T ss_pred             Eeccccc--------------------ccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeE
Confidence            2211111                    111222222222111 123455689999998653  35555444444344678


Q ss_pred             EEEEeCChh-HHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHH
Q 038205          255 ILLTTRLQQ-VCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKA  321 (375)
Q Consensus       255 IivTTr~~~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~  321 (375)
                      +|+||++.. +... .+.-..+++..++.++..+.+.+.+..+... -..+..+.|++.++|.. -++..
T Consensus       152 FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~-id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        152 FILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA-FEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             EEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            887777643 3222 2223678999999999999999887533211 22566788888998855 45554

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.99  E-value=1.1e-08  Score=95.57  Aligned_cols=201  Identities=13%  Similarity=0.107  Sum_probs=110.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc-EEEEEEecCCCC-hhHHHH---
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD-KVGIATVSQDPS-IINVQS---  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~-~~~~~~---  192 (375)
                      |..+..++|++..++.|..++..+..+.+.++|++|+||||+|+.+.+...... +. ..+.++.+.... ....+.   
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~   89 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP-WENNFTEFNVADFFDQGKKYLVEDP   89 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcc-cccceEEechhhhhhcchhhhhcCc
Confidence            566778899999999999999887766789999999999999999988765321 11 123333321100 000000   


Q ss_pred             HHHHHhCCC--CCCCCHHHHHHHHHHHhhh--cCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCChh-HH
Q 038205          193 ELVKSLGWA--LTEKDEEDRADRLRLMFSE--SKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQQ-VC  265 (375)
Q Consensus       193 ~i~~~l~~~--~~~~~~~~~~~~l~~~~~~--l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~~-v~  265 (375)
                      .....++..  ......+.....+......  ..+.+-+||+||++...  ....+...+......+++|+||.+.. +.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~  169 (337)
T PRK12402         90 RFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLI  169 (337)
T ss_pred             chhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCc
Confidence            000000000  0000111111222221111  12345589999997542  22223222222234467887775432 22


Q ss_pred             hhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          266 YRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       266 ~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ..+ .....+.+.+++.++...++.+.+...... --.+..+.+++.++|.+-.+.
T Consensus       170 ~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~  224 (337)
T PRK12402        170 PPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAI  224 (337)
T ss_pred             hhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHH
Confidence            222 223568889999999999998876422211 225677888888888766553

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.95  E-value=1.5e-08  Score=102.18  Aligned_cols=182  Identities=18%  Similarity=0.185  Sum_probs=111.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCc-EEEEEcCCCchHHHHHHHHHhhhhhcCC-------------------ccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTK-MVGLHGLGGVGKTTLAKFVGNQLRQNNI-------------------FDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  177 (375)
                      |..+..++|.+..+..|.+++..++.. .+.++|+.|+||||+|+.+++...-...                   |..++
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            667788999999999999999877655 4589999999999999999987642111                   11111


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKI  255 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~I  255 (375)
                      ++....... .+.++++...+                ..  ....+++-++|||+++..  ..++.+...+..-....++
T Consensus        92 EidAas~~k-VDdIReLie~v----------------~~--~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         92 EVDAASRTK-VDDTRELLDNV----------------QY--RPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EeccccccC-HHHHHHHHHHH----------------Hh--hhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            121110001 11112222111                10  022467779999999754  3455544444333344566


Q ss_pred             EEEeCC-hhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          256 LLTTRL-QQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       256 ivTTr~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      |++|.+ ..+... ......+++.+|+.++....+.+.+.... ...-.+....|++.++|.|--+
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg-I~~edeAL~lIA~~S~Gd~R~A  217 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ-LPFEAEALTLLAKAANGSMRDA  217 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            665544 444322 22236799999999999999988764322 1222466788999999988633

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.95  E-value=1.6e-08  Score=98.72  Aligned_cols=200  Identities=17%  Similarity=0.176  Sum_probs=113.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..++.|.+++..++. +.+.++|+.|+||||+|+.+.+...-...-.... +. +.....-...+.|..
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~~-~~PCG~C~sC~~I~a   89 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-IT-AQPCGQCRACTEIDA   89 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-CC-CCCCcccHHHHHHHc
Confidence            66778899999999999999987764 4568999999999999999988764210000000 00 000000011111110


Q ss_pred             Hh-----CCC-CCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SL-----GWA-LTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l-----~~~-~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      .-     ... ......++..+.+..... ...++.-++|||+++..  ..++.+...+..-...+++|++|.+ ..+..
T Consensus        90 G~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlp  169 (700)
T PRK12323         90 GRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPV  169 (700)
T ss_pred             CCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhh
Confidence            00     000 001122333333322111 22456679999999864  3455555555443345666665554 44432


Q ss_pred             hh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          267 RM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       267 ~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      .+ +.-..+.+..++.++..+.+.+.+....... ..+..+.|++.++|.|.-..
T Consensus       170 TIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~-d~eAL~~IA~~A~Gs~RdAL  223 (700)
T PRK12323        170 TVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAH-EVNALRLLAQAAQGSMRDAL  223 (700)
T ss_pred             HHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            22 2226789999999999999887764322121 24556788999999986443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=1.9e-08  Score=98.47  Aligned_cols=181  Identities=17%  Similarity=0.173  Sum_probs=112.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  177 (375)
                      |..+...+|.+...+.|..++..++ .+.+.++|+.|+||||+|+.+++...-..                   .|..++
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDvi   90 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLI   90 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceE
Confidence            6677889999999999999998776 45779999999999999999987764211                   111111


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      .+..+..                    ...++..+.+.... ....+++-++|+|+++..  .....+...+.....+.+
T Consensus        91 EIDAAs~--------------------~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~  150 (702)
T PRK14960         91 EIDAASR--------------------TKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVK  150 (702)
T ss_pred             Eeccccc--------------------CCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcE
Confidence            2211111                    11222222222110 022356679999999864  344444444433334567


Q ss_pred             EEEEeCCh-hHH-hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          255 ILLTTRLQ-QVC-YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       255 IivTTr~~-~v~-~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +|++|.+. .+. ........+++.+++.++....+.+.+...... --......|++.++|.+-.+
T Consensus       151 FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~-id~eAL~~IA~~S~GdLRdA  216 (702)
T PRK14960        151 FLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIA-ADQDAIWQIAESAQGSLRDA  216 (702)
T ss_pred             EEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            88777653 222 112333678999999999999998877532212 22456678888898877543

>PLN03025 replication factor C subunit; Provisional

Probab=98.94  E-value=1.6e-08  Score=93.38  Aligned_cols=183  Identities=16%  Similarity=0.133  Sum_probs=105.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.++.+..|..++..+..+.+.++|++|+||||+|+.+++..... .|.. ++-+..+...+. +.++++..
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~-~~vr~~i~   86 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGI-DVVRNKIK   86 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccH-HHHHHHHH
Confidence            66777888999999999888887777778899999999999999998876421 1211 111111111111 12222221


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCCh-hHHhh-hCCCC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQ-QVCYR-MGCDP  272 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~-~~~~~  272 (375)
                      .+..               .-.....++.-+++||+++...  ....+...+......+++|+++... .+... .....
T Consensus        87 ~~~~---------------~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~  151 (319)
T PLN03025         87 MFAQ---------------KKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCA  151 (319)
T ss_pred             HHHh---------------ccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhh
Confidence            1100               0000112456799999998642  2222222222223446677766542 22111 12225


Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      .+++.+++.++....+...+..+...- -.+....|++.++|-.-.
T Consensus       152 ~i~f~~l~~~~l~~~L~~i~~~egi~i-~~~~l~~i~~~~~gDlR~  196 (319)
T PLN03025        152 IVRFSRLSDQEILGRLMKVVEAEKVPY-VPEGLEAIIFTADGDMRQ  196 (319)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHH
Confidence            789999999999999988774322111 145677888888876643

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.93  E-value=3.8e-07  Score=91.12  Aligned_cols=204  Identities=15%  Similarity=0.088  Sum_probs=116.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCc---cEEEEEEecCC---CChhHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF---DKVGIATVSQD---PSIINVQ  191 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~~~---~~~~~~~  191 (375)
                      |..+..++|++..+..+...+.......+.|+|++|+||||+|+.+++..+....+   ...-|+.+...   .+...+.
T Consensus       150 p~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~  229 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVT  229 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHh
Confidence            56667788999999998888876667789999999999999999998877543322   12334444321   1111111


Q ss_pred             HHH---------------HHHhCCC----------------CCC--CCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--
Q 038205          192 SEL---------------VKSLGWA----------------LTE--KDEEDRADRLRLMFSESKSRKILVILDDVWKE--  236 (375)
Q Consensus       192 ~~i---------------~~~l~~~----------------~~~--~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--  236 (375)
                      ..+               +...+..                .++  .-+...+..+..   .+..+++.++-|+.|..  
T Consensus       230 ~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~---~Le~~~v~~~~~~~~~~~~  306 (615)
T TIGR02903       230 NPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLK---VLEDKRVEFSSSYYDPDDP  306 (615)
T ss_pred             HHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHH---HHhhCeEEeecceeccCCc
Confidence            111               1111100                000  001223344444   66667777776655543  


Q ss_pred             ccccccCCCCCCCCCCcEEEE--EeCChhH-Hhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHc
Q 038205          237 LDLETIGIPVGDRDNCCKILL--TTRLQQV-CYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADEC  312 (375)
Q Consensus       237 ~~~~~l~~~l~~~~~gs~Iiv--TTr~~~v-~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~  312 (375)
                      ..|+.+...+....+...+++  ||++... ...+ +....+.+.+++.++.+.++.+.+...... --.++.+.|.+.+
T Consensus       307 ~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~-ls~eal~~L~~ys  385 (615)
T TIGR02903       307 NVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH-LAAGVEELIARYT  385 (615)
T ss_pred             ccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHCC
Confidence            345555544544444444444  5554321 1111 222467889999999999999977532111 1145556666666


Q ss_pred             CCchhHHHHHHHH
Q 038205          313 KGLPLAIKAVGSA  325 (375)
Q Consensus       313 ~glPlai~~i~~~  325 (375)
                      ..-+-++..++..
T Consensus       386 ~~gRraln~L~~~  398 (615)
T TIGR02903       386 IEGRKAVNILADV  398 (615)
T ss_pred             CcHHHHHHHHHHH
Confidence            5556777766544

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.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.93  E-value=3.3e-08  Score=91.43  Aligned_cols=182  Identities=13%  Similarity=0.143  Sum_probs=107.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec--CCCChhHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS--QDPSIINVQSELV  195 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~--~~~~~~~~~~~i~  195 (375)
                      |..+..++|+++.++.+..++..+..+.+.++|++|+||||+++.+.+...... +.. .++.+.  ..... ....+.+
T Consensus        13 P~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~~-~~i~~~~~~~~~~-~~~~~~i   89 (319)
T PRK00440         13 PRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WRE-NFLELNASDERGI-DVIRNKI   89 (319)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-ccc-ceEEeccccccch-HHHHHHH
Confidence            556677889999999999999877777789999999999999999988764322 111 122221  11111 1111111


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCCh-hHHh-hhCCC
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQ-QVCY-RMGCD  271 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~-~v~~-~~~~~  271 (375)
                      ..+                ..........+-++++|+++...  ....+...+......+.+|+++... .+.. .....
T Consensus        90 ~~~----------------~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~  153 (319)
T PRK00440         90 KEF----------------ARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRC  153 (319)
T ss_pred             HHH----------------HhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHh
Confidence            111                00000111346689999987542  2223322233223446777766432 1211 11222


Q ss_pred             CcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          272 PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       272 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ..+++.+++.++....+...+...... -..+....+++.++|.+--+
T Consensus       154 ~~~~~~~l~~~ei~~~l~~~~~~~~~~-i~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        154 AVFRFSPLKKEAVAERLRYIAENEGIE-ITDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             heeeeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            468899999999998888877532211 12567788999999887754

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=3e-08  Score=96.33  Aligned_cols=198  Identities=17%  Similarity=0.135  Sum_probs=112.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..++.|..++..+.. +.+.++|++|+||||+|+.+++...-.+.+....|.|.+... +......-+.
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv~   88 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDVL   88 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCceE
Confidence            56677889999999999999887764 456999999999999999998877532222212222211000 0000000000


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GC  270 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~  270 (375)
                      .+... .....+...+ +.+...  ...+++-++|+|+++..  ..+..+...+......+.+|++|.. ..+...+ ..
T Consensus        89 el~~~-~~~~vd~iR~-l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         89 EIDAA-SNNSVEDVRD-LREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             Eeccc-ccCCHHHHHH-HHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            00000 1111122222 111111  22356679999999754  3455554444433344555555543 3333222 22


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ...+++.+++.++....+.+.+....... -.+....|++.++|.+--+
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~i-~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGREA-EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHH
Confidence            35789999999999999998774322121 2566788999999988644

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

Probab=98.91  E-value=8.9e-09  Score=92.30  Aligned_cols=150  Identities=15%  Similarity=0.211  Sum_probs=104.0

Q ss_pred             CCCCCCccchHHHH---HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESAC---NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |+.+..++|.+..+   ..|.+.+.++..+.+.+|||+|+||||||+.+....+...    ..||..+....-..-.+.|
T Consensus       134 PktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~i  209 (554)
T KOG2028|consen  134 PKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDI  209 (554)
T ss_pred             cchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHH
Confidence            66667777776654   3345556778888999999999999999999999877543    5577777666555556666


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEE--EeCChhH---Hhh
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILL--TTRLQQV---CYR  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Iiv--TTr~~~v---~~~  267 (375)
                      +++...              ..   .+.++|.+|.+|+|..-  .+-+.+   +|...+|.-++|  ||.++..   ...
T Consensus       210 fe~aq~--------------~~---~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aL  269 (554)
T KOG2028|consen  210 FEQAQN--------------EK---SLTKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAAL  269 (554)
T ss_pred             HHHHHH--------------HH---hhhcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHH
Confidence            554310              01   56678999999999643  333333   445556666555  7777544   222


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHH
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKH  291 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~  291 (375)
                      +..-.++-|++|+.++...++.+-
T Consensus       270 lSRC~VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  270 LSRCRVFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             HhccceeEeccCCHHHHHHHHHHH
Confidence            344468899999999999999873

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.91  E-value=3.4e-08  Score=95.15  Aligned_cols=201  Identities=19%  Similarity=0.202  Sum_probs=116.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCC-------------------ccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNI-------------------FDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  177 (375)
                      |..+..++|.+.....|...+..+.. +.+.++||+|+||||+|+.+.+...-...                   +..+.
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            66778899999998888888877765 45899999999999999999887542110                   00111


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKI  255 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~I  255 (375)
                      .+..+....... ++++...+                ..  ....+++-++|+|+++..  ...+.+...+......+.+
T Consensus        90 el~aa~~~gid~-iR~i~~~~----------------~~--~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~  150 (472)
T PRK14962         90 ELDAASNRGIDE-IRKIRDAV----------------GY--RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF  150 (472)
T ss_pred             EEeCcccCCHHH-HHHHHHHH----------------hh--ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEE
Confidence            222111111111 11111111                00  022346679999999754  2334443333332233444


Q ss_pred             EEEeCC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcC-CchhHHHHHHHHhc---CC
Q 038205          256 LLTTRL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECK-GLPLAIKAVGSALR---LR  329 (375)
Q Consensus       256 ivTTr~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~-glPlai~~i~~~L~---~~  329 (375)
                      |++|.+ ..+...+ .....+.+.+++.++....+.+.+..... .-..+....|++.++ +++.++..+-.+..   .+
T Consensus       151 Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi-~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~  229 (472)
T PRK14962        151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTMLEQVWKFSEGK  229 (472)
T ss_pred             EEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCC
Confidence            544443 3333322 23367899999999999998887642211 122456778888775 55677777755432   12


Q ss_pred             -CHHHHHHHH
Q 038205          330 -TADEWNVAL  338 (375)
Q Consensus       330 -~~~~w~~~l  338 (375)
                       +.+....++
T Consensus       230 It~e~V~~~l  239 (472)
T PRK14962        230 ITLETVHEAL  239 (472)
T ss_pred             CCHHHHHHHH
Confidence             555555444

>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=98.91  E-value=1.3e-08  Score=86.65  Aligned_cols=177  Identities=19%  Similarity=0.232  Sum_probs=95.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHh-----cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALK-----KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..|+|.++.+..+.-++.     .+....+.+|||+|+||||||..+.+.....  |.   +.+.+.-... .-+.
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~--~~---~~sg~~i~k~-~dl~   93 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN--FK---ITSGPAIEKA-GDLA   93 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT----EE---EEECCC--SC-HHHH
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC--eE---eccchhhhhH-HHHH
Confidence            7788999999998888765543     2346788999999999999999999988743  32   2222110011 1111


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccccCC--CCCCC----------CC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLETIGI--PVGDR----------DN  251 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~l~~--~l~~~----------~~  251 (375)
                      .++.                       .++ ++-+|.+|+++...         .++....  ....+          .+
T Consensus        94 ~il~-----------------------~l~-~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~  149 (233)
T PF05496_consen   94 AILT-----------------------NLK-EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPP  149 (233)
T ss_dssp             HHHH-----------------------T---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE---
T ss_pred             HHHH-----------------------hcC-CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCC
Confidence            1211                       222 34467778876431         0111000  00000          12


Q ss_pred             CcEEEEEeCChhHHhhhCCC--CcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHH
Q 038205          252 CCKILLTTRLQQVCYRMGCD--PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSA  325 (375)
Q Consensus       252 gs~IivTTr~~~v~~~~~~~--~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~  325 (375)
                      -+-|=-|||...+...+...  -..+++..+.+|...+..+.+..-. .+-..+.+.+|+++|.|-|--..-+-+.
T Consensus       150 FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~-i~i~~~~~~~Ia~rsrGtPRiAnrll~r  224 (233)
T PF05496_consen  150 FTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN-IEIDEDAAEEIARRSRGTPRIANRLLRR  224 (233)
T ss_dssp             -EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT--EE-HHHHHHHHHCTTTSHHHHHHHHHH
T ss_pred             ceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHhcCCChHHHHHHHHH
Confidence            24455788876554443332  3458999999999999998775322 1222678899999999999765544333

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.90  E-value=4.7e-08  Score=96.68  Aligned_cols=201  Identities=16%  Similarity=0.176  Sum_probs=130.4

Q ss_pred             CCCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-CChhHHHHHHH
Q 038205          117 IPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-PSIINVQSELV  195 (375)
Q Consensus       117 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~  195 (375)
                      +|..+...+-|....+.|.+   ..+.+.+.|..|+|.|||||+.+.......   -..+.|.+.... .++..+++.++
T Consensus        14 ~P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~---~~~v~Wlslde~dndp~rF~~yLi   87 (894)
T COG2909          14 RPVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD---GAAVAWLSLDESDNDPARFLSYLI   87 (894)
T ss_pred             CCCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc---ccceeEeecCCccCCHHHHHHHHH
Confidence            34455666777766665544   236789999999999999999999873332   356899998754 57888888888


Q ss_pred             HHhCCCCCCCCHH-----------HHHHHHHHHhhhcC--CCcEEEEEeCCCCc--ccc-cccCCCCCCCCCCcEEEEEe
Q 038205          196 KSLGWALTEKDEE-----------DRADRLRLMFSESK--SRKILVILDDVWKE--LDL-ETIGIPVGDRDNCCKILLTT  259 (375)
Q Consensus       196 ~~l~~~~~~~~~~-----------~~~~~l~~~~~~l~--~kr~LlVlDdv~~~--~~~-~~l~~~l~~~~~gs~IivTT  259 (375)
                      ..++.......++           .....+..++..+.  .+++.|||||..-.  ..+ ..+...+.....+..+|+||
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~S  167 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTS  167 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEe
Confidence            8887443332221           11122233222333  36899999997532  111 12222233445678999999


Q ss_pred             CChhHHhhhC---CCCcccC----CCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc
Q 038205          260 RLQQVCYRMG---CDPRIKL----DALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR  327 (375)
Q Consensus       260 r~~~v~~~~~---~~~~~~l----~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~  327 (375)
                      |+..-+....   ....+++    -.|+.+|+-++|....+...    ...-.+.+.+..+|-+-|+..++=.++
T Consensus       168 R~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L----d~~~~~~L~~~teGW~~al~L~aLa~~  238 (894)
T COG2909         168 RSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL----DAADLKALYDRTEGWAAALQLIALALR  238 (894)
T ss_pred             ccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC----ChHHHHHHHhhcccHHHHHHHHHHHcc
Confidence            9854322211   1122333    34889999999998764322    245578899999999999999887777

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.89  E-value=8.4e-08  Score=88.41  Aligned_cols=176  Identities=15%  Similarity=0.158  Sum_probs=111.1

Q ss_pred             CCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhh----hcCCccEEEEEEe-cCCCChhHHHHHH
Q 038205          121 FSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLR----QNNIFDKVGIATV-SQDPSIINVQSEL  194 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~----~~~~f~~~~wv~~-~~~~~~~~~~~~i  194 (375)
                      +...+|.+..++.+..++..+. .+.+.++|+.|+||||+|+.++...-    ...+++...|... +....... ++++
T Consensus         3 ~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~   81 (313)
T PRK05564          3 FHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNI   81 (313)
T ss_pred             hhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHH
Confidence            3456788899999999997765 45779999999999999999988652    2234555445432 11112222 2222


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCC--cccccccCCCCCCCCCCcEEEEEeCChhHH-hh-hCC
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWK--ELDLETIGIPVGDRDNCCKILLTTRLQQVC-YR-MGC  270 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~IivTTr~~~v~-~~-~~~  270 (375)
                      ...+..                  ....+++-++|+|+++.  ...+..+...+..-..++.+|++|.+.+.. .. ...
T Consensus        82 ~~~~~~------------------~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR  143 (313)
T PRK05564         82 IEEVNK------------------KPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR  143 (313)
T ss_pred             HHHHhc------------------CcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence            222211                  02334556777777653  445666666665555678888888764322 21 222


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ...+++.++++++....+.+.....     ..+.++.++..++|.|.-+.
T Consensus       144 c~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        144 CQIYKLNRLSKEEIEKFISYKYNDI-----KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             ceeeeCCCcCHHHHHHHHHHHhcCC-----CHHHHHHHHHHcCCCHHHHH
Confidence            3678999999999988887654211     13446778899999886543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=3.3e-08  Score=94.01  Aligned_cols=192  Identities=16%  Similarity=0.166  Sum_probs=111.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+++...-......   .......+    ...+..
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~s----C~~i~~   86 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTS----CLEITK   86 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcH----HHHHHc
Confidence            67778899999999999999988775 46899999999999999999887642211000   00000001    111111


Q ss_pred             HhCCCC------CCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEE-eCChhHHh
Q 038205          197 SLGWAL------TEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLT-TRLQQVCY  266 (375)
Q Consensus       197 ~l~~~~------~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivT-Tr~~~v~~  266 (375)
                      ......      .....++..+....+.. ...++.-++|+|+++..  ..+..+...+........+|++ |....+..
T Consensus        87 g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~  166 (484)
T PRK14956         87 GISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPE  166 (484)
T ss_pred             cCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccH
Confidence            111100      01111222222211111 23456679999999854  4456554444333334555544 44444433


Q ss_pred             hh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          267 RM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       267 ~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .. ..-..+.+.+++.++..+.+.+.+...... --.+....|++.++|.+-
T Consensus       167 TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~-~e~eAL~~Ia~~S~Gd~R  217 (484)
T PRK14956        167 TILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQ-YDQEGLFWIAKKGDGSVR  217 (484)
T ss_pred             HHHhhhheeeecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCChHH
Confidence            32 222568999999999999888876532211 125667889999999885

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.87  E-value=5.7e-08  Score=94.04  Aligned_cols=197  Identities=16%  Similarity=0.149  Sum_probs=113.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCCCChhHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~  195 (375)
                      |..+...+|.+..+..|...+..+. .+.+.++|+.|+||||+|+.+++...-...... ..+...    ..-.....+.
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C----~~C~~C~~i~   92 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTC----EQCTNCISFN   92 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCC----CCChHHHHHh
Confidence            6777888999999999988877665 468899999999999999999887642111000 000000    0000000010


Q ss_pred             HHhCC------CCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEE-EeCChhHH
Q 038205          196 KSLGW------ALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILL-TTRLQQVC  265 (375)
Q Consensus       196 ~~l~~------~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Iiv-TTr~~~v~  265 (375)
                      .....      .......++....+.... ....+++-++|+|+++..  ..+..+...+....+.+.+|+ ||+...+.
T Consensus        93 ~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~  172 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP  172 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhh
Confidence            00000      001112223322222210 023456779999999864  345555444443334556554 55545554


Q ss_pred             hhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          266 YRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       266 ~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ..+ .....+++.+++.++....+.+.+....... -.+....|++.++|.+--+
T Consensus       173 ~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~i-e~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        173 ATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKT-DIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHH
Confidence            333 2335688999999999999998875332122 2456677888998877533

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.86  E-value=6.7e-08  Score=94.17  Aligned_cols=184  Identities=19%  Similarity=0.240  Sum_probs=110.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhc-------------------CCccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQN-------------------NIFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------------~~f~~~~  177 (375)
                      |..+..++|.+..+..|...+..+.. +.+.++|+.|+||||+|+.+++...-.                   ..|...+
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            66778889999999999999987654 457899999999999999998765421                   0122222


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      ++.......+                    ++....+..+.. ...+++-++|+|+++..  ..++.+...+......+.
T Consensus        92 eidaas~~gv--------------------d~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~  151 (546)
T PRK14957         92 EIDAASRTGV--------------------EETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVK  151 (546)
T ss_pred             EeecccccCH--------------------HHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCce
Confidence            2222111111                    111111111100 23456779999999754  334444444443334556


Q ss_pred             EEEEeC-ChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          255 ILLTTR-LQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       255 IivTTr-~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      +|++|. ...+... ......+++.+++.++....+.+.+.... ..--......|++.++|.+- |+..+
T Consensus       152 fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg-i~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        152 FILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN-INSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             EEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            665544 3334322 23336889999999999888887654222 12224556788888988664 44444

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

Probab=98.85  E-value=3.4e-07  Score=85.44  Aligned_cols=168  Identities=24%  Similarity=0.276  Sum_probs=113.7

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      ..+.+|+++++++...|..    ..+.-+.|+|++|+|||++++.+.........-..+++++.....+...++..|+..
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            3477899999999988733    334459999999999999999999998764322227888888889999999999999


Q ss_pred             hC-CCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-----ccccCCCCCCCCCCcE--EEEEeCChhHHhh--
Q 038205          198 LG-WALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-----LETIGIPVGDRDNCCK--ILLTTRLQQVCYR--  267 (375)
Q Consensus       198 l~-~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-----~~~l~~~l~~~~~gs~--IivTTr~~~v~~~--  267 (375)
                      ++ .+....+..+....+.+.+.. .++.+++|||+++....     +-.+.......  .++  +|..+.+..+...  
T Consensus        97 ~~~~p~~g~~~~~~~~~l~~~~~~-~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~~~ld  173 (366)
T COG1474          97 LGKVPLTGDSSLEILKRLYDNLSK-KGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKFLDYLD  173 (366)
T ss_pred             cCCCCCCCCchHHHHHHHHHHHHh-cCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHHHHHhh
Confidence            95 233334455566666663322 45899999999975422     21221111111  344  3334444433222  


Q ss_pred             ------hCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          268 ------MGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       268 ------~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                            ++. ..+.+.|-+.+|...++..++.
T Consensus       174 ~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~  204 (366)
T COG1474         174 PRVKSSLGP-SEIVFPPYTAEELYDILRERVE  204 (366)
T ss_pred             hhhhhccCc-ceeeeCCCCHHHHHHHHHHHHH
Confidence                  222 2378899999999999998764

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.84  E-value=1.7e-07  Score=86.98  Aligned_cols=200  Identities=15%  Similarity=0.138  Sum_probs=115.7

Q ss_pred             cCCCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCC--ccEEEEEEecCCCChhHHHH
Q 038205          116 PIPRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNI--FDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       116 ~~~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |.|..+...+|.++....+...+..+. ...+.|+|+.|+||||+|..+.+..--...  +...   ............+
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~   93 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWR   93 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHH
Confidence            557788889999999999999998776 456999999999999999999887643110  1110   0000111111223


Q ss_pred             HHHHHhC-------CCCC--------CCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCc
Q 038205          193 ELVKSLG-------WALT--------EKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCC  253 (375)
Q Consensus       193 ~i~~~l~-------~~~~--------~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs  253 (375)
                      .+...-.       .+.+        ....++.. .+.+.+.  ...+++-++|+|+++..  ...+.+...+..-...+
T Consensus        94 ~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR-~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         94 QIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIR-RVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHcCCCCCEEEeecccccccccccccCCHHHHH-HHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            3322211       0100        11122222 2333222  22456779999999854  23333333332222334


Q ss_pred             EEEEEeCC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          254 KILLTTRL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       254 ~IivTTr~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      .+|++|.. ..+.... +....+++.+++.++...++.+.....  . -..+....+++.++|.|.....+
T Consensus       173 ~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~--~-~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ--G-SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             eEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc--C-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            55554443 3333222 222689999999999999998743221  1 12455788999999999866543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=1e-07  Score=94.22  Aligned_cols=198  Identities=15%  Similarity=0.158  Sum_probs=111.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCc--cEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIF--DKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|.+..+..|.+++..+.. +.+.++|+.|+||||+|+.+.+...-....  .....    ...+.-...+.|
T Consensus        12 P~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i   87 (618)
T PRK14951         12 PRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDI   87 (618)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHH
Confidence            66778899999999999999987765 567999999999999999997665311000  00000    000001111111


Q ss_pred             HHHhCC------CCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhH
Q 038205          195 VKSLGW------ALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQV  264 (375)
Q Consensus       195 ~~~l~~------~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v  264 (375)
                      ...-..      .......++..+.+.... .-..++.-++|||+++..  ..+..+...+..-...+++|++|.+ ..+
T Consensus        88 ~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         88 DSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             HcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            100000      000111222222222210 012345568999999864  3455554444433345566665543 333


Q ss_pred             Hh-hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          265 CY-RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       265 ~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      .. .......+++.+++.++....+.+.+....... -......|++.++|.+--+.
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i-e~~AL~~La~~s~GslR~al  223 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA-EPQALRLLARAARGSMRDAL  223 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            32 233346789999999999999988764322121 24567888889988775443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=8.9e-08  Score=93.26  Aligned_cols=181  Identities=15%  Similarity=0.157  Sum_probs=108.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCc-EEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTK-MVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  177 (375)
                      |..+...+|.+..+..|..++..+..+ .+.++|+.|+||||+|+.+.+...-..                   .|..++
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~   91 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLF   91 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEE
Confidence            677788999999999999999877654 578999999999999999987664211                   111222


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      .+..+....                    .++..+.+.... ....++.-++|+|+++..  .....+...+..-...++
T Consensus        92 eidaas~~~--------------------v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~  151 (509)
T PRK14958         92 EVDAASRTK--------------------VEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVK  151 (509)
T ss_pred             EEcccccCC--------------------HHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeE
Confidence            222221111                    122222221110 022356668999999854  334444333333334566


Q ss_pred             EEEEeCC-hhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          255 ILLTTRL-QQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       255 IivTTr~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +|++|.+ ..+... ......+++.+++.++....+.+.+....... -......|++.++|.|--+
T Consensus       152 fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~-~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        152 FILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEF-ENAALDLLARAANGSVRDA  217 (509)
T ss_pred             EEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCcHHHH
Confidence            6665544 333322 22235688999999998887776654222121 2445677888888887544

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=8.8e-08  Score=92.06  Aligned_cols=181  Identities=16%  Similarity=0.173  Sum_probs=110.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhc-------------------CCccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQN-------------------NIFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------------~~f~~~~  177 (375)
                      |..+..++|.+..++.|...+..+.. +.+.++|+.|+||||+|+.+.....-.                   ..+..++
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~   88 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVI   88 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEE
Confidence            66778899999999999988877765 479999999999999999987754210                   1112223


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKI  255 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~I  255 (375)
                      .+..+....+.+ .+++.....                .  .-..+++-++|+|+++..  ..++.+...+..-.+.+++
T Consensus        89 eidaas~~~vdd-IR~Iie~~~----------------~--~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~f  149 (491)
T PRK14964         89 EIDAASNTSVDD-IKVILENSC----------------Y--LPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKF  149 (491)
T ss_pred             EEecccCCCHHH-HHHHHHHHH----------------h--ccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEE
Confidence            333322222211 112221110                0  022346668999999754  2344444444333345666


Q ss_pred             EEEeC-ChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          256 LLTTR-LQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       256 ivTTr-~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      |++|. ...+... ......+.+.+++.++....+.+.+...... --.+..+.|++.++|.+-.
T Consensus       150 Ilatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~-i~~eAL~lIa~~s~GslR~  213 (491)
T PRK14964        150 ILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE-HDEESLKLIAENSSGSMRN  213 (491)
T ss_pred             EEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHH
Confidence            66554 3444333 2333678999999999999998877532211 1245667888888887753

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.82  E-value=6.6e-08  Score=95.50  Aligned_cols=181  Identities=15%  Similarity=0.170  Sum_probs=109.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCC-------------------ccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNI-------------------FDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  177 (375)
                      |..+..++|.+..+..|..++..++. +.+.++|+.|+||||+|+.+.+...-...                   |..++
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dvl   91 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLL   91 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceE
Confidence            66778899999999999999987764 56899999999999999999876532110                   11111


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~  254 (375)
                      .+.....                    ...+.+.+.+.... .-..+++-++|+|+++...  ....+...+......++
T Consensus        92 EidaAs~--------------------~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~  151 (709)
T PRK08691         92 EIDAASN--------------------TGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVK  151 (709)
T ss_pred             EEecccc--------------------CCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcE
Confidence            1211111                    11122222221100 0123466799999997542  23333333332234466


Q ss_pred             EEEEeCC-hhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          255 ILLTTRL-QQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       255 IivTTr~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +|++|.+ ..+... .+....+.+.+++.++....+.+.+...... -.......|++.++|.+.-+
T Consensus       152 fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~-id~eAL~~Ia~~A~GslRdA  217 (709)
T PRK08691        152 FILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA-YEPPALQLLGRAAAGSMRDA  217 (709)
T ss_pred             EEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC-cCHHHHHHHHHHhCCCHHHH
Confidence            7766654 322211 2222567889999999999998877532212 12456788999999988544

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.82  E-value=2.3e-07  Score=86.67  Aligned_cols=201  Identities=16%  Similarity=0.103  Sum_probs=112.9

Q ss_pred             cCCCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEE----EEEecCCCChhHH
Q 038205          116 PIPRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVG----IATVSQDPSIINV  190 (375)
Q Consensus       116 ~~~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~----wv~~~~~~~~~~~  190 (375)
                      |-|+.+...+|.+.....|.+.+..+.. ..+.++|+.|+||+|+|..+.+..--........    -.+.... ..-..
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~-~~c~~   91 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAID-PDHPV   91 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCC-CCChH
Confidence            4577778899999999999999988764 4689999999999999998877653211000000    0000000 00011


Q ss_pred             HHHHHHHhCCC-------CCCCC----HHHHHHHHHHHhhhc-----CCCcEEEEEeCCCCc--ccccccCCCCCCCCCC
Q 038205          191 QSELVKSLGWA-------LTEKD----EEDRADRLRLMFSES-----KSRKILVILDDVWKE--LDLETIGIPVGDRDNC  252 (375)
Q Consensus       191 ~~~i~~~l~~~-------~~~~~----~~~~~~~l~~~~~~l-----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~g  252 (375)
                      .+.+...-..+       .++..    ..-..+.++++.+.+     .+++.++|+||++..  .....+...+..-..+
T Consensus        92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~  171 (365)
T PRK07471         92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR  171 (365)
T ss_pred             HHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            11111111000       00000    000112222222222     346779999998754  3334443334333345


Q ss_pred             cEEEEEeCChh-HHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          253 CKILLTTRLQQ-VCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       253 s~IivTTr~~~-v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      +.+|++|++.. +.... .....+.+.+++.++..+++.+.....   +  ......++..++|.|.....+
T Consensus       172 ~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~---~--~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        172 SLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL---P--DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             eEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC---C--HHHHHHHHHHcCCCHHHHHHH
Confidence            66777777643 33222 223678999999999999998865321   1  122267899999999866443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.81  E-value=6.5e-08  Score=95.76  Aligned_cols=194  Identities=17%  Similarity=0.148  Sum_probs=111.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..+..|...+..+.. ..+.++|+.|+||||+|+.+.+...-...+.       ......-...+.|..
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~~   84 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIEQ   84 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHHc
Confidence            67778899999999999999987764 4468999999999999999987664211000       000000111111111


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      .-..+      ......++..+.+..+. ....+++-++|+|+++..  ...+.+...+..-...+++|++|.+ ..+..
T Consensus        85 g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~  164 (647)
T PRK07994         85 GRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  164 (647)
T ss_pred             CCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch
Confidence            00000      00011222222222211 123456779999999754  3444444444333334566655544 44432


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      . .+....+++.+++.++....+.+.+...... .-......|++.++|.|--+
T Consensus       165 TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~-~e~~aL~~Ia~~s~Gs~R~A  217 (647)
T PRK07994        165 TILSRCLQFHLKALDVEQIRQQLEHILQAEQIP-FEPRALQLLARAADGSMRDA  217 (647)
T ss_pred             HHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            2 2233678999999999999998876322111 12455678899999977643

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.81  E-value=2.3e-07  Score=87.21  Aligned_cols=183  Identities=14%  Similarity=0.194  Sum_probs=109.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC--------------------CccEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN--------------------IFDKV  176 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~f~~~  176 (375)
                      |..+...+|.+..++.|.+++..+. .+.+.++|++|+||||+|+.+.....-..                    +++. 
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-   88 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-   88 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-
Confidence            4556778999999999999997765 45678999999999999999987754210                    1111 


Q ss_pred             EEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          177 GIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       177 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      .++....... ....+++...+                ..  ....+++-++|+|+++..  .....+...+......+.
T Consensus        89 ~~~~~~~~~~-~~~~~~l~~~~----------------~~--~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 IEIDAASNNG-VDDIREILDNV----------------KY--APSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             EEeeccccCC-HHHHHHHHHHH----------------hc--CcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence            2221111101 01111121111                00  023345668999998654  334444333433334566


Q ss_pred             EEEEeCChh-HHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          255 ILLTTRLQQ-VCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       255 IivTTr~~~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      +|++|.+.. +... ......+++.++++++....+...+...... --.+.+..+++.++|.|..+..
T Consensus       150 lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~-i~~~a~~~l~~~~~g~~~~a~~  217 (355)
T TIGR02397       150 FILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK-IEDEALELIARAADGSLRDALS  217 (355)
T ss_pred             EEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCChHHHHH
Confidence            667765543 2222 2223578889999999999888766422111 1246778889999998875543

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.80  E-value=1.1e-07  Score=83.66  Aligned_cols=164  Identities=18%  Similarity=0.134  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCH
Q 038205          128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDE  207 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  207 (375)
                      ...+..+..+......+.+.|+|++|+|||+|++.+++.....  -..+.++.+.....                   ..
T Consensus        30 ~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~-------------------~~   88 (235)
T PRK08084         30 DSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLDKRAW-------------------FV   88 (235)
T ss_pred             HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhh-------------------hh
Confidence            4455666666555566789999999999999999999876643  23445555432100                   00


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCc---ccccc-cCCCCCC-CCCC-cEEEEEeCCh---------hHHhhhCCCC
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKE---LDLET-IGIPVGD-RDNC-CKILLTTRLQ---------QVCYRMGCDP  272 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~---~~~~~-l~~~l~~-~~~g-s~IivTTr~~---------~v~~~~~~~~  272 (375)
                      .+.   + +   .+. +--+|++||+...   ..|+. +...+.. ...| .++|+||+..         .+.+++....
T Consensus        89 ~~~---~-~---~~~-~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~  160 (235)
T PRK08084         89 PEV---L-E---GME-QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQ  160 (235)
T ss_pred             HHH---H-H---Hhh-hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCc
Confidence            011   1 1   111 1248999999753   23332 1111211 1123 4789998753         4455566668


Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      ++++.+++.++-.+++.+.+.... -.--+++..-|++.+.|..-++..
T Consensus       161 ~~~l~~~~~~~~~~~l~~~a~~~~-~~l~~~v~~~L~~~~~~d~r~l~~  208 (235)
T PRK08084        161 IYKLQPLSDEEKLQALQLRARLRG-FELPEDVGRFLLKRLDREMRTLFM  208 (235)
T ss_pred             eeeecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhhcCCHHHHHH
Confidence            899999999999999988664321 122256778888888876655543

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

Probab=98.80  E-value=7.2e-09  Score=82.61  Aligned_cols=115  Identities=21%  Similarity=0.262  Sum_probs=76.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc---CCccEEEEEEecCCCChhHHHHHHHHHhCCCCCC-CCHHHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN---NIFDKVGIATVSQDPSIINVQSELVKSLGWALTE-KDEEDRADRLRLM  217 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~  217 (375)
                      +.+.+.|+|++|+|||++++.+.+.....   ..-..++|+..+...+...+...++..++..... .+.......+.+ 
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~-   81 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLID-   81 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHH-
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHH-
Confidence            34689999999999999999999887531   1134567998888889999999999999877665 455555566665 


Q ss_pred             hhhcCCC-cEEEEEeCCCCc-c--cccccCCCCCCCCCCcEEEEEeCC
Q 038205          218 FSESKSR-KILVILDDVWKE-L--DLETIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       218 ~~~l~~k-r~LlVlDdv~~~-~--~~~~l~~~l~~~~~gs~IivTTr~  261 (375)
                        .+... ..+||+||++.. .  .++.+.....  ..+.++|+..+.
T Consensus        82 --~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 --ALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             --HHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             --HHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence              55443 369999999764 2  2333322122  566788887765

>PRK04195 replication factor C large subunit; Provisional

Probab=98.80  E-value=6.6e-08  Score=94.31  Aligned_cols=176  Identities=19%  Similarity=0.147  Sum_probs=106.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcC----CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKD----STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      |..+..++|.+..++.|..|+..-    ..+.+.|+|++|+||||+|+.+++...    |.. +-++.+...+ ...+..
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~~-ielnasd~r~-~~~i~~   83 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WEV-IELNASDQRT-ADVIER   83 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCE-EEEccccccc-HHHHHH
Confidence            666778899999999999998531    267899999999999999999999874    222 2223332211 122222


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHhhhcC-CCcEEEEEeCCCCccc------ccccCCCCCCCCCCcEEEEEeCCh-hHH
Q 038205          194 LVKSLGWALTEKDEEDRADRLRLMFSESK-SRKILVILDDVWKELD------LETIGIPVGDRDNCCKILLTTRLQ-QVC  265 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~~~~~l~-~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~IivTTr~~-~v~  265 (375)
                      ++......              .   .+. .++-+||||+++....      +..+...+.  ..+..||+|+.+. ...
T Consensus        84 ~i~~~~~~--------------~---sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~  144 (482)
T PRK04195         84 VAGEAATS--------------G---SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPS  144 (482)
T ss_pred             HHHHhhcc--------------C---cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccc
Confidence            22221100              0   222 3678999999976421      333322222  2234566666432 111


Q ss_pred             --hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          266 --YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       266 --~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                        ........+.+.+++..+....+.+.+....... -.+....|++.++|-.-.+
T Consensus       145 ~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i-~~eaL~~Ia~~s~GDlR~a  199 (482)
T PRK04195        145 LRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIEC-DDEALKEIAERSGGDLRSA  199 (482)
T ss_pred             hhhHhccceEEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHH
Confidence              1122335788999999999998888764222111 2466788888888766544

>PF13173 AAA_14: AAA domain

Probab=98.79  E-value=1.3e-08  Score=80.95  Aligned_cols=120  Identities=23%  Similarity=0.154  Sum_probs=76.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      .+++.|.|+.|+||||++++++.+..   ....+++++...........                .+..+.+.+   ...
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~----------------~~~~~~~~~---~~~   59 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLAD----------------PDLLEYFLE---LIK   59 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhh----------------hhhHHHHHH---hhc
Confidence            46899999999999999999998765   22344555443321100000                001122222   333


Q ss_pred             CCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhh------hCCCCcccCCCCChHHH
Q 038205          223 SRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYR------MGCDPRIKLDALDQAEG  284 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~------~~~~~~~~l~~L~~~e~  284 (375)
                      .++.+++||++....+|......+....+..+|++|+.+......      .+....+++.||+-.|.
T Consensus        60 ~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   60 PGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            478899999999888887765555555566899999987655432      12225678888887663

>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=98.78  E-value=6.1e-08  Score=78.39  Aligned_cols=122  Identities=20%  Similarity=0.119  Sum_probs=71.7

Q ss_pred             chHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCC
Q 038205          126 TTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEK  205 (375)
Q Consensus       126 gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  205 (375)
                      |++..+..+...+.....+.+.|+|++|+|||++++.+++.....  -..++++..............+...        
T Consensus         2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~--------   71 (151)
T cd00009           2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF--------   71 (151)
T ss_pred             chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh--------
Confidence            677888889888877677899999999999999999999987522  2334555544332211111111000        


Q ss_pred             CHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc-----ccccccCCCCCC---CCCCcEEEEEeCChh
Q 038205          206 DEEDRADRLRLMFSESKSRKILVILDDVWKE-----LDLETIGIPVGD---RDNCCKILLTTRLQQ  263 (375)
Q Consensus       206 ~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~-----~~~~~l~~~l~~---~~~gs~IivTTr~~~  263 (375)
                         ........   ....++.+|++||++..     ..+..+...+..   ...+..+|+||....
T Consensus        72 ---~~~~~~~~---~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 ---LVRLLFEL---AEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             ---hHhHHHHh---hccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence               00001111   34457789999999853     122222122211   135678888888653

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.78  E-value=2.8e-07  Score=86.83  Aligned_cols=175  Identities=14%  Similarity=0.166  Sum_probs=103.2

Q ss_pred             CCCccchHHHHHHHHHHHhcCC----------CcEEEEEcCCCchHHHHHHHHHhhhhhcC------------------C
Q 038205          121 FSSFETTESACNQIIEALKKDS----------TKMVGLHGLGGVGKTTLAKFVGNQLRQNN------------------I  172 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~----------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~  172 (375)
                      +...+|.+..++.|.+++..+.          .+.+.++||+|+|||++|+.+.+...-..                  .
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~   83 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGT   83 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCC
Confidence            4567799999999999987653          56788999999999999999877543110                  0


Q ss_pred             ccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCC
Q 038205          173 FDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDR  249 (375)
Q Consensus       173 f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~  249 (375)
                      ++...++....                   .....++....+.... ....+++-++++|+++..  .....+...+...
T Consensus        84 hpD~~~i~~~~-------------------~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep  144 (394)
T PRK07940         84 HPDVRVVAPEG-------------------LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEP  144 (394)
T ss_pred             CCCEEEecccc-------------------ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcC
Confidence            11111111100                   0011122222221110 122345668889999754  2223333333333


Q ss_pred             CCCcEEEEEeCC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          250 DNCCKILLTTRL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       250 ~~gs~IivTTr~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      .+++.+|++|.+ ..+...+ +....+.+.+++.++..+.+.+..+.   +   .+.+..++..++|.|....
T Consensus       145 ~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~---~---~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        145 PPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV---D---PETARRAARASQGHIGRAR  211 (394)
T ss_pred             CCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC---C---HHHHHHHHHHcCCCHHHHH
Confidence            345666666655 3443332 23368899999999999888754331   1   3557788999999997543

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=1.8e-07  Score=88.98  Aligned_cols=201  Identities=14%  Similarity=0.153  Sum_probs=111.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCc-EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE-ecCCCChhHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTK-MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT-VSQDPSIINVQSELV  195 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i~  195 (375)
                      |..+..++|.+..++.|..++..+..+ .+.++||.|+||||+|..+.+...-........|.. .......-...+.+.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~   91 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFD   91 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHh
Confidence            667788899999999999999877654 588999999999999999988764211111100110 000000001111111


Q ss_pred             HHhCCCC------CCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe-CChhHH
Q 038205          196 KSLGWAL------TEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT-RLQQVC  265 (375)
Q Consensus       196 ~~l~~~~------~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT-r~~~v~  265 (375)
                      .......      .....++..+....+. .-..+.+-++|+|+++..  ..++.+...+..-.+.+.+|++| +...+.
T Consensus        92 ~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         92 AGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             cCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH
Confidence            1100000      0011222222221110 012345668899998754  34555544444333455666555 434443


Q ss_pred             hhhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          266 YRMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       266 ~~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ..+. ....+++.+++.++....+...+.... ..--.+.++.|++.++|.+--+
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g-~~i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAEG-ISVDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            3221 225788999999999988887764221 1122567788999999977533

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

Probab=98.75  E-value=7.8e-08  Score=97.03  Aligned_cols=173  Identities=21%  Similarity=0.260  Sum_probs=100.7

Q ss_pred             CCCCCCccchHHHHH---HHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACN---QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~---~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|.+..+.   .+.+.+..+....+.++|++|+||||||+.+++...  ..|     +.++.........+  
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~--~~f-----~~lna~~~~i~dir--   94 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR--AHF-----SSLNAVLAGVKDLR--   94 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc--Ccc-----eeehhhhhhhHHHH--
Confidence            667778899988774   566677777777889999999999999999998764  223     11111000000001  


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEE--eCChh--HHh-h
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLT--TRLQQ--VCY-R  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivT--Tr~~~--v~~-~  267 (375)
                                    .......... ...+++.+|+|||++..  ...+.+...+   ..|+.++++  |.+..  +.. .
T Consensus        95 --------------~~i~~a~~~l-~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL  156 (725)
T PRK13341         95 --------------AEVDRAKERL-ERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKAL  156 (725)
T ss_pred             --------------HHHHHHHHHh-hhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHh
Confidence                          1111111100 11246779999999754  3344443222   234445543  33321  111 1


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcCC------CCCCCCchHHHHHHHHHcCCchh
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAGI------DVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~------~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .+....+.+.+|+.++...++.+.+..      .....-..+..+.|++.+.|..-
T Consensus       157 ~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        157 VSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             hccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            222357899999999999999886641      11112224566888888887644

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=2.1e-07  Score=91.23  Aligned_cols=179  Identities=17%  Similarity=0.177  Sum_probs=107.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  177 (375)
                      |..+..++|.+..++.|..++..+.. +.+.++|+.|+||||+|+.+.....-..                   .|...+
T Consensus        12 P~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~   91 (527)
T PRK14969         12 PKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLI   91 (527)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCcee
Confidence            56678889999999999999987665 4568999999999999999987764210                   111122


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~  254 (375)
                      ++..+..                    ...++....+.... .-..+++-++|+|+++...  ....+...+..-...+.
T Consensus        92 ei~~~~~--------------------~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~  151 (527)
T PRK14969         92 EVDAASN--------------------TQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVK  151 (527)
T ss_pred             Eeecccc--------------------CCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEE
Confidence            2211111                    11122222221110 0223567799999997542  34444333433334456


Q ss_pred             EEEEeCC-hhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          255 ILLTTRL-QQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       255 IivTTr~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      +|++|.+ ..+... ......+++.+++.++....+.+.+...... ........|++.++|.+-
T Consensus       152 fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~-~~~~al~~la~~s~Gslr  215 (527)
T PRK14969        152 FILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP-FDATALQLLARAAAGSMR  215 (527)
T ss_pred             EEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHH
Confidence            6665544 333221 1222578999999999998888766422211 224556888999999775

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

Probab=98.73  E-value=4.9e-08  Score=86.12  Aligned_cols=95  Identities=14%  Similarity=0.131  Sum_probs=64.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC--CChhHHHHHHHHHhCCCCCCCCHHH---HHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD--PSIINVQSELVKSLGWALTEKDEED---RADRLR  215 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~---~~~~l~  215 (375)
                      ...+.++|+|++|+|||||++.+++..... +|+.++|+.+..+  .++.++++.+...+-......+...   ....+.
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            457899999999999999999999998765 8999999997766  7888899888332211111112211   111111


Q ss_pred             HHhh--hcCCCcEEEEEeCCCCc
Q 038205          216 LMFS--ESKSRKILVILDDVWKE  236 (375)
Q Consensus       216 ~~~~--~l~~kr~LlVlDdv~~~  236 (375)
                      ....  .-.+++.+|++|++...
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHHh
Confidence            1111  23479999999998643

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.73  E-value=3.3e-07  Score=89.68  Aligned_cols=199  Identities=14%  Similarity=0.159  Sum_probs=110.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|++..++.|.+++..+. .+.+.++||.|+||||+|+.+.+...-.+      |.... ....-...+.+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~------~~~~~-~Cg~C~sCr~i~~   84 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLN------PKDGD-CCNSCSVCESINT   84 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCC------CCCCC-CCcccHHHHHHHc
Confidence            6777889999999999999987755 45788999999999999999988764211      11100 0001111111111


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe-CChhHHh
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT-RLQQVCY  266 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT-r~~~v~~  266 (375)
                      .....      ......++....+..... ...+++-++|+|+++..  ..+..+...+..-...+.+|++| ....+..
T Consensus        85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~  164 (605)
T PRK05896         85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPL  164 (605)
T ss_pred             CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhH
Confidence            10000      000111222222211100 12234457999998753  33444433333222345555544 4444432


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHHHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAVGS  324 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i~~  324 (375)
                      . ......+++.+++.++....+...+...... --...+..+++.++|.|- |+..+-.
T Consensus       165 TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~-Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        165 TIISRCQRYNFKKLNNSELQELLKSIAKKEKIK-IEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            2 2334678999999999998888866422111 114567888999999664 4444443

>PRK09087 hypothetical protein; Validated

Probab=98.72  E-value=2.1e-07  Score=81.33  Aligned_cols=160  Identities=18%  Similarity=0.138  Sum_probs=96.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      ..+.+.|+|++|+|||+|++.++.....       .+++..      .+..++..                       .+
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~~-------~~i~~~------~~~~~~~~-----------------------~~   86 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSDA-------LLIHPN------EIGSDAAN-----------------------AA   86 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcCC-------EEecHH------HcchHHHH-----------------------hh
Confidence            3567999999999999999988875431       122211      01111111                       11


Q ss_pred             CCCcEEEEEeCCCCcc-cccccCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcccCCCCChHHHHHHHHH
Q 038205          222 KSRKILVILDDVWKEL-DLETIGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRIKLDALDQAEGLDLLRK  290 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~-~~~~l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~  290 (375)
                      .+  -+|++||++... .-..+...+.. ...|..+|+|++.         +.+.+++....++++++++.++-.+++.+
T Consensus        87 ~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~  164 (226)
T PRK09087         87 AE--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFK  164 (226)
T ss_pred             hc--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHH
Confidence            11  278889996431 11112111211 1346778888873         44555566678899999999999999998


Q ss_pred             HcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHh------cC-C-CHHHHHHHHHH
Q 038205          291 HAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSAL------RL-R-TADEWNVALDK  340 (375)
Q Consensus       291 ~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L------~~-~-~~~~w~~~l~~  340 (375)
                      .+.... ..--+++.+-|++.+.|.+-++..+-..|      .. + +....+++++.
T Consensus       165 ~~~~~~-~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~  221 (226)
T PRK09087        165 LFADRQ-LYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNE  221 (226)
T ss_pred             HHHHcC-CCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHh
Confidence            885322 11226778888888888877765432222      11 2 55566666654

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=3.7e-07  Score=89.74  Aligned_cols=200  Identities=15%  Similarity=0.158  Sum_probs=113.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..+..|.+.+..+. .+.+.++|+.|+||||+|+.+.+...-......       ..++.-...+.+..
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~~   84 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVTQ   84 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHhc
Confidence            5667788899999999998887765 578889999999999999999877642110000       00000001111111


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHH
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVC  265 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~  265 (375)
                      .....      ......++... +.+...  ...+++-++|+|+++..  .....|...+..-.....+|++|.+ ..+.
T Consensus        85 g~hpDv~eId~a~~~~Id~iR~-L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll  163 (624)
T PRK14959         85 GMHVDVVEIDGASNRGIDDAKR-LKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP  163 (624)
T ss_pred             CCCCceEEEecccccCHHHHHH-HHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh
Confidence            00000      00011112111 222111  22456679999999754  3344444444322234556665544 4443


Q ss_pred             hh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHHHHHHh
Q 038205          266 YR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKAVGSAL  326 (375)
Q Consensus       266 ~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~i~~~L  326 (375)
                      .. ......+++.+++.++....+.+.+.... ..-..+.++.|++.++|.+ .|+..+..++
T Consensus       164 ~TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg-i~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        164 VTIVSRCQHFTFTRLSEAGLEAHLTKVLGREG-VDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHHhhhhccccCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            22 22235789999999999999887664222 1122566788999999865 5766665443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=3.2e-07  Score=93.79  Aligned_cols=179  Identities=15%  Similarity=0.108  Sum_probs=108.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCc---------------------cE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIF---------------------DK  175 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f---------------------~~  175 (375)
                      |..+..++|.+..++.|..++..+.. +.+.++|+.|+||||+|+.+.+.+.-....                     ..
T Consensus        11 P~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d   90 (824)
T PRK07764         11 PATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD   90 (824)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc
Confidence            56677889999999999999987665 458899999999999999998776411000                     00


Q ss_pred             EEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHH-hhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCC
Q 038205          176 VGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLM-FSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNC  252 (375)
Q Consensus       176 ~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~-~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~g  252 (375)
                      ++++.....                    ...++..+..... +.-..+++-++|||+++..  ...+.|...+..-...
T Consensus        91 v~eidaas~--------------------~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~  150 (824)
T PRK07764         91 VTEIDAASH--------------------GGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEH  150 (824)
T ss_pred             EEEeccccc--------------------CCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCC
Confidence            111111111                    1112222211111 1123456668999999754  3344444444333344


Q ss_pred             cEEEEEeC-ChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          253 CKILLTTR-LQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       253 s~IivTTr-~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      +.+|++|. ...+... ......+++..++.++....+.+.+...... ........|++.++|.+.
T Consensus       151 ~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~-id~eal~lLa~~sgGdlR  216 (824)
T PRK07764        151 LKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP-VEPGVLPLVIRAGGGSVR  216 (824)
T ss_pred             eEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHH
Confidence            56665554 4444433 2334678999999999998888776422211 124556778888998774

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

Probab=98.70  E-value=9.5e-08  Score=80.90  Aligned_cols=51  Identities=24%  Similarity=0.354  Sum_probs=35.0

Q ss_pred             CccchHHHHHHHHHHHh---cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCc
Q 038205          123 SFETTESACNQIIEALK---KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF  173 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f  173 (375)
                      .|+||+++++++...+.   ....+.+.|+|++|+|||+|++.++........+
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~   54 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGY   54 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE
Confidence            47899999999999983   3457899999999999999999999988866333

>PRK08727 hypothetical protein; Validated

Probab=98.69  E-value=4.5e-07  Score=79.78  Aligned_cols=169  Identities=20%  Similarity=0.146  Sum_probs=99.3

Q ss_pred             CCCccchHH-HHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhC
Q 038205          121 FSSFETTES-ACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       121 ~~~~~gr~~-~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      +..|++... .+..+...........+.|+|++|+|||+|++.+++.....+  ..+.+++..+      ....+.    
T Consensus        18 f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~--~~~~y~~~~~------~~~~~~----   85 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAG--RSSAYLPLQA------AAGRLR----   85 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcC--CcEEEEeHHH------hhhhHH----
Confidence            455654433 334333333333345799999999999999999998866432  2445554322      111110    


Q ss_pred             CCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---cccc-cCCCCCC-CCCCcEEEEEeCC---------hhHH
Q 038205          200 WALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---DLET-IGIPVGD-RDNCCKILLTTRL---------QQVC  265 (375)
Q Consensus       200 ~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---~~~~-l~~~l~~-~~~gs~IivTTr~---------~~v~  265 (375)
                                  ..+.    .+ .+.-+||+||+....   .|.. +...+.. ..+|..+|+|++.         +.+.
T Consensus        86 ------------~~~~----~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         86 ------------DALE----AL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             ------------HHHH----HH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHH
Confidence                        1111    22 123489999997442   2222 2111111 1245679999984         2333


Q ss_pred             hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          266 YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       266 ~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +++.....+++.+++.++...++.+++.... -.--.+...-|++.++|-.-.+
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~-l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRRG-LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhCCCCHHHH
Confidence            4444456889999999999999998764322 1222567788888888665554

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.69  E-value=7.9e-07  Score=75.66  Aligned_cols=160  Identities=16%  Similarity=0.153  Sum_probs=92.8

Q ss_pred             HHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEEEEEecCCCChhHHHH
Q 038205          133 QIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       133 ~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      .|.+.+..+.. +.+.++|+.|+||||+|+.+.....-..                   .+....++.....        
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~--------   74 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQ--------   74 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccC--------
Confidence            45555655554 6799999999999999999987764321                   1111122211111        


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh-hHHhh-
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ-QVCYR-  267 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~-  267 (375)
                                 ....++....+..... ...+.+-++|+|+++..  ...+.+...+......+.+|++|++. .+... 
T Consensus        75 -----------~~~~~~i~~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i  143 (188)
T TIGR00678        75 -----------SIKVDQVRELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTI  143 (188)
T ss_pred             -----------cCCHHHHHHHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHH
Confidence                       0111222211111100 22356678999998754  23444444444334456677766643 22222 


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      ......+.+.+++.++..+.+.+. +  . +   .+.+..|++.++|.|..
T Consensus       144 ~sr~~~~~~~~~~~~~~~~~l~~~-g--i-~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       144 RSRCQVLPFPPLSEEALLQWLIRQ-G--I-S---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             HhhcEEeeCCCCCHHHHHHHHHHc-C--C-C---HHHHHHHHHHcCCCccc
Confidence            122357899999999999988876 2  1 1   46688999999998853

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.69  E-value=8.5e-07  Score=88.86  Aligned_cols=220  Identities=14%  Similarity=0.133  Sum_probs=121.4

Q ss_pred             CCccchHHHHHHHHHHHhc----C-CCcEEEEEcCCCchHHHHHHHHHhhhhhc---CCcc--EEEEEEecCCCChhHHH
Q 038205          122 SSFETTESACNQIIEALKK----D-STKMVGLHGLGGVGKTTLAKFVGNQLRQN---NIFD--KVGIATVSQDPSIINVQ  191 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~f~--~~~wv~~~~~~~~~~~~  191 (375)
                      ..+.+|++++++|...|..    . ...++.|+|++|+|||++++.|.+.....   ....  .++++....-.+...++
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            3467999999999988743    2 23567899999999999999998876432   1222  24566666666788888


Q ss_pred             HHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC---CCcEEEEEeCCCCccc--ccccCCCCC-CCCCCcEEEE--EeCChh
Q 038205          192 SELVKSLGWALTEKDEEDRADRLRLMFSESK---SRKILVILDDVWKELD--LETIGIPVG-DRDNCCKILL--TTRLQQ  263 (375)
Q Consensus       192 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~---~kr~LlVlDdv~~~~~--~~~l~~~l~-~~~~gs~Iiv--TTr~~~  263 (375)
                      ..|..++........ ......+..++..+.   ....+||||+++....  -+.|...+. ....+++|++  +|.+.+
T Consensus       835 qvI~qqL~g~~P~~G-lsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlD  913 (1164)
T PTZ00112        835 QVLYKQLFNKKPPNA-LNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMD  913 (1164)
T ss_pred             HHHHHHHcCCCCCcc-ccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchh
Confidence            888888843322211 112223334333442   2346999999975421  011111111 1123445443  343322


Q ss_pred             H--------HhhhCCCCcccCCCCChHHHHHHHHHHcCCCC--CCC-CchHHHHHHHHHcCCchhHHHHHHHHhcC----
Q 038205          264 V--------CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDV--ADK-TMTDVSKRVADECKGLPLAIKAVGSALRL----  328 (375)
Q Consensus       264 v--------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~--~~~-~~~~~~~~i~~~~~glPlai~~i~~~L~~----  328 (375)
                      +        ...++ ...+.+.|++.++..+++..++....  ..+ -++-+++.++...|-.=.||.++-.....    
T Consensus       914 LperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegs  992 (1164)
T PTZ00112        914 LPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQ  992 (1164)
T ss_pred             cchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCC
Confidence            2        11222 13477899999999999999875311  111 12223333333334445566555444321    


Q ss_pred             C-CHHHHHHHHHHhhh
Q 038205          329 R-TADEWNVALDKLQN  343 (375)
Q Consensus       329 ~-~~~~w~~~l~~l~~  343 (375)
                      + +.+.-..+.+.+..
T Consensus       993 kVT~eHVrkAleeiE~ 1008 (1164)
T PTZ00112        993 KIVPRDITEATNQLFD 1008 (1164)
T ss_pred             ccCHHHHHHHHHHHHh
Confidence            1 34455555554433

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.68  E-value=9.1e-08  Score=84.18  Aligned_cols=186  Identities=18%  Similarity=0.187  Sum_probs=114.8

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEE-EEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGI-ATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~w-v~~~~~~~~~~~~~~i~~  196 (375)
                      |+.+..+.|.+..+.-|.+.+.....+....+||+|.|||+.|..+....--.+.|.+++- .++|...... +.+.=..
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~Kik  110 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVREKIK  110 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhhhhc
Confidence            6777888999999999999998877889999999999999999999887766566766542 2333322211 1111000


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCc-EEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CCC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRK-ILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GCD  271 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr-~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~~  271 (375)
                      .+         ........... .-...+ -++|||+++..  +.|..+...+......++.|+.+.. ..+.... ..-
T Consensus       111 ~f---------akl~~~~~~~~-~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC  180 (346)
T KOG0989|consen  111 NF---------AKLTVLLKRSD-GYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRC  180 (346)
T ss_pred             CH---------HHHhhcccccc-CCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhH
Confidence            00         00000000000 001123 48899999865  5677776666555555666655544 2222222 122


Q ss_pred             CcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          272 PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       272 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      ..++..+|..++...-++..+..+..+-+ ....+.|++.++|-
T Consensus       181 ~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d-~~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  181 QKFRFKKLKDEDIVDRLEKIASKEGVDID-DDALKLIAKISDGD  223 (346)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHcCCc
Confidence            46889999999999888888754332322 45667888888875

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=7.8e-07  Score=83.97  Aligned_cols=180  Identities=14%  Similarity=0.183  Sum_probs=104.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhc------CCccEEEEEEecCCC-ChhH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQN------NIFDKVGIATVSQDP-SIIN  189 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~------~~f~~~~wv~~~~~~-~~~~  189 (375)
                      |..+..++|.+..++.+...+..+. .+.+.++|++|+||||+|+.+.+.....      ..|...+. .+.... ....
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~-~l~~~~~~~~~   91 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIF-ELDAASNNSVD   91 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceE-EeccccCCCHH
Confidence            6677888999999999999998765 4588899999999999999997776431      11111111 111000 0011


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEe-CChhHHh
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTT-RLQQVCY  266 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTT-r~~~v~~  266 (375)
                      ..+++++.+.                .  ....+++-++++|+++...  .+..+...+......+.+|++| ....+..
T Consensus        92 ~i~~l~~~~~----------------~--~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~  153 (367)
T PRK14970         92 DIRNLIDQVR----------------I--PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIP  153 (367)
T ss_pred             HHHHHHHHHh----------------h--ccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCH
Confidence            1112222110                0  0223456689999986542  2444432232222334555554 3333322


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      . ......+++.++++++....+.+.+...... --.+..+.+++.++|.+-
T Consensus       154 ~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~-i~~~al~~l~~~~~gdlr  204 (367)
T PRK14970        154 TILSRCQIFDFKRITIKDIKEHLAGIAVKEGIK-FEDDALHIIAQKADGALR  204 (367)
T ss_pred             HHHhcceeEecCCccHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHhCCCCHH
Confidence            2 2233578899999999998888766422211 124667888888888655

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=4.8e-07  Score=89.55  Aligned_cols=198  Identities=15%  Similarity=0.154  Sum_probs=112.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE--EEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK--VGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~--~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|.+..++.|.+++..++ .+.+.++|+.|+||||+|+.+.+...-......  ..+-    ....-.-.+.|
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~----~cg~c~~C~~i   95 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID----LCGVGEHCQAI   95 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc----cCcccHHHHHH
Confidence            6677889999999999999998776 457899999999999999999887642111000  0000    00000111111


Q ss_pred             HHHhCCC------CCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe-CChhH
Q 038205          195 VKSLGWA------LTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT-RLQQV  264 (375)
Q Consensus       195 ~~~l~~~------~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT-r~~~v  264 (375)
                      ......+      ......++..+.+.... .-..+++-++|+|+++..  ...+.+...+..-...+++|++| ....+
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kl  175 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKV  175 (598)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhh
Confidence            1111110      01111222222222110 012345668999998754  23444444443333456666555 43444


Q ss_pred             Hhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          265 CYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       265 ~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ...+ .....+.+.+++.++....+.+.+...... --.+....|++.++|.+.-+.
T Consensus       176 l~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~-i~~eAl~lIa~~a~Gdlr~al  231 (598)
T PRK09111        176 PVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE-VEDEALALIARAAEGSVRDGL  231 (598)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHH
Confidence            3222 223578999999999999998876422211 124667888999999887553

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=9.2e-07  Score=87.12  Aligned_cols=184  Identities=16%  Similarity=0.127  Sum_probs=108.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCc-EEEEEcCCCchHHHHHHHHHhhhhhcCCc---------------------cE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTK-MVGLHGLGGVGKTTLAKFVGNQLRQNNIF---------------------DK  175 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f---------------------~~  175 (375)
                      |..+..++|.+..++.|..++..+... .+.++|+.|+||||+|+.+.+...-....                     ..
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~d   88 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSID   88 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCce
Confidence            566788899999999999999887654 57899999999999999998765421100                     00


Q ss_pred             EEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCC
Q 038205          176 VGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNC  252 (375)
Q Consensus       176 ~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~g  252 (375)
                      ++.+..+..                    ...++..+...... .-..+++-++|+|+++..  ...+.+...+..-...
T Consensus        89 vieidaas~--------------------~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~  148 (584)
T PRK14952         89 VVELDAASH--------------------GGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEH  148 (584)
T ss_pred             EEEeccccc--------------------cCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCC
Confidence            111111111                    11122211111110 012345669999998754  3444444444333334


Q ss_pred             cEEEE-EeCChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          253 CKILL-TTRLQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       253 s~Iiv-TTr~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      +.+|+ ||....+... ......+++.+++.++..+.+.+.+...... -.......|++.++|.+- ++..+
T Consensus       149 ~~fIL~tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~-i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        149 LIFIFATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVV-VDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             eEEEEEeCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55555 4444444433 3334678999999999988888766422211 124556778888888764 44443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.63  E-value=7.1e-07  Score=92.27  Aligned_cols=181  Identities=12%  Similarity=0.120  Sum_probs=103.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC----ccEEEE-EEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI----FDKVGI-ATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~~~~~~~~~~~~  192 (375)
                      |..+.+++||+.++.+++..|......-+.++|++|+||||+|+.+++.......    ....+| +..+.-        
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l--------  254 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL--------  254 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh--------
Confidence            6677889999999999999987776667789999999999999999988753211    122232 221110        


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc-------ccc--ccCCCCCCCCCCcEEEEEeCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKEL-------DLE--TIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~-------~~~--~l~~~l~~~~~gs~IivTTr~  261 (375)
                        .      .......+....++.+++.+  .+++.+|++|+++...       ..+  .+..+... ....++|-||..
T Consensus       255 --~------ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~-~G~l~~IgaTT~  325 (852)
T TIGR03345       255 --Q------AGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA-RGELRTIAATTW  325 (852)
T ss_pred             --h------cccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh-CCCeEEEEecCH
Confidence              0      00011122223333333333  2478999999986431       122  12122211 123566666665


Q ss_pred             hhHHh-------hhCCCCcccCCCCChHHHHHHHHHHcC---CCCCCCCchHHHHHHHHHcCCc
Q 038205          262 QQVCY-------RMGCDPRIKLDALDQAEGLDLLRKHAG---IDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       262 ~~v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~~---~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      ++...       .......+.+.+++.++...++.....   ......-..+....+++.+.+.
T Consensus       326 ~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       326 AEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             HHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            43311       122335799999999999999764432   1111111244556666666544

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.63  E-value=1.7e-06  Score=84.00  Aligned_cols=180  Identities=16%  Similarity=0.166  Sum_probs=105.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhc---C----------------CccEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQN---N----------------IFDKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~---~----------------~f~~~~  177 (375)
                      |..+..++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.++....-.   .                .+....
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~   91 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLI   91 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEE
Confidence            56677889999999999999987654 456789999999999999988765310   0                011112


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCc
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCC  253 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs  253 (375)
                      .+..+..                    ...++.. .+....+  ...+++-++|+|+++..  ...+.+...+....+.+
T Consensus        92 eidaas~--------------------~gvd~ir-~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~  150 (486)
T PRK14953         92 EIDAASN--------------------RGIDDIR-ALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRT  150 (486)
T ss_pred             EEeCccC--------------------CCHHHHH-HHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCe
Confidence            2211111                    1111111 1222111  22456779999998754  23344433333323344


Q ss_pred             EEEEEe-CChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          254 KILLTT-RLQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       254 ~IivTT-r~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+|++| +...+... ......+.+.+++.++....+.+.+...... --...+..|++.++|.+-.+
T Consensus       151 v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~-id~~al~~La~~s~G~lr~a  217 (486)
T PRK14953        151 IFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE-YEEKALDLLAQASEGGMRDA  217 (486)
T ss_pred             EEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            555554 43333322 2233578899999999998888766422111 12456677888888876544

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=1.2e-06  Score=86.82  Aligned_cols=199  Identities=16%  Similarity=0.156  Sum_probs=108.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE-ecCCCChhHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT-VSQDPSIINVQSELV  195 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i~  195 (375)
                      |..+..++|.+..+..|.+.+..+.. +.+.++|+.|+||||+|+.+.+...-........|.. .......-...+.+.
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~   91 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFD   91 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHh
Confidence            66778889999999999998887664 4588999999999999999987764211111000110 000000001111111


Q ss_pred             HHhCCC------CCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEe-CChhHH
Q 038205          196 KSLGWA------LTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTT-RLQQVC  265 (375)
Q Consensus       196 ~~l~~~------~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTT-r~~~v~  265 (375)
                      ..-..+      ......++....+..+. .-..+.+-++|+|+++...  ..+.+...+..-...+.+|++| +...+.
T Consensus        92 ~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl  171 (620)
T PRK14954         92 AGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (620)
T ss_pred             ccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhh
Confidence            100000      00111223332222210 0123456688999987542  3444433343322345555444 444443


Q ss_pred             hh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          266 YR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       266 ~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .. ......+++.+++.++....+.+.+...... -..+.++.|++.++|.+-
T Consensus       172 ~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~-I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        172 ATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ-IDADALQLIARKAQGSMR  223 (620)
T ss_pred             HHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhCCCHH
Confidence            32 3334678999999999888887765321111 125667889999999555

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=1.6e-06  Score=86.49  Aligned_cols=195  Identities=14%  Similarity=0.139  Sum_probs=110.8

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..++.|..++..+.. +.+.++|+.|+||||+|+.+.+...-......      ....+.-...+.+..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~------~~~c~~c~~c~~i~~   85 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPK------GRPCGTCEMCRAIAE   85 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCCccCHHHHHHhc
Confidence            56677889999999999998877654 56789999999999999999877642110000      000111122222222


Q ss_pred             HhCCCC------CCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SLGWAL------TEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l~~~~------~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      ......      .....++..+.+..... ...+++-++|+|+++..  ...+.+...+......+.+|++|.+ ..+..
T Consensus        86 ~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~  165 (585)
T PRK14950         86 GSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPA  165 (585)
T ss_pred             CCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhH
Confidence            211110      11112222222211100 12346679999998754  3344443333333344566665543 33332


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      . ......+.+.+++..+....+.+.+...... --.+.+..|++.++|.+..+
T Consensus       166 tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~a  218 (585)
T PRK14950        166 TILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN-LEPGALEAIARAATGSMRDA  218 (585)
T ss_pred             HHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            2 2223568899999999998888776432211 12466788999999988644

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.60  E-value=3.6e-07  Score=86.05  Aligned_cols=171  Identities=20%  Similarity=0.228  Sum_probs=97.5

Q ss_pred             CCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.++.+++|.+.+..             ..++-+.++|++|+|||++|+.+++....  .|     +.+..    .
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~--~~-----~~v~~----~  190 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA--TF-----IRVVG----S  190 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCC--CE-----Eecch----H
Confidence            3467888888888887631             12456999999999999999999997753  22     22211    1


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc----------------cccccCCCCC--CC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL----------------DLETIGIPVG--DR  249 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~  249 (375)
                      .+....   ++         .....++.+++ .-...+.+|+|||++...                .+..+...+.  ..
T Consensus       191 ~l~~~~---~g---------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       191 ELVRKY---IG---------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             HHHHHh---hh---------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence            111110   10         11112222222 223467899999986431                1111111111  11


Q ss_pred             CCCcEEEEEeCChhHH-----hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          250 DNCCKILLTTRLQQVC-----YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      ..+..||.||......     ........+.+...+.++..++|+.+.......++.  ....+++.+.|..-
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~--~~~~la~~t~g~sg  329 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDV--DLEAIAKMTEGASG  329 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccC--CHHHHHHHcCCCCH
Confidence            2457788888754322     111223578899999999999999887533222211  13567778877643

Many proteins may score above the trusted cutoff because an internal

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.60  E-value=1.9e-07  Score=86.22  Aligned_cols=94  Identities=12%  Similarity=0.131  Sum_probs=63.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC--ChhHHHHHHHHHhCCCCCCCCHH-HHH--HHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP--SIINVQSELVKSLGWALTEKDEE-DRA--DRLR  215 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~-~~~--~~l~  215 (375)
                      +..+..+|+|++|+|||||++.+++..... +|+.++|+.+.+..  ++.++++.+.-.+-....+.+.. ...  ....
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~i  245 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVI  245 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHH
Confidence            457889999999999999999999999875 89999999998876  67777777753221111112221 111  1111


Q ss_pred             HHhhh--cCCCcEEEEEeCCCC
Q 038205          216 LMFSE--SKSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~--l~~kr~LlVlDdv~~  235 (375)
                      +..++  ..++.++|++|++..
T Consensus       246 e~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        246 EKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHcCCCEEEEEEChHH
Confidence            11112  367999999999863

>PTZ00202 tuzin; Provisional

Probab=98.59  E-value=9.3e-07  Score=82.32  Aligned_cols=166  Identities=12%  Similarity=0.171  Sum_probs=102.0

Q ss_pred             CCCCCCCccchHHHHHHHHHHHhcC---CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHH
Q 038205          117 IPRFFSSFETTESACNQIIEALKKD---STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       117 ~~~~~~~~~gr~~~~~~l~~~l~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      .|.....|+||+.++..|...|...   .++++.|.|++|+|||||++.+.....    +  ..++.-+.  +..++++.
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~--~qL~vNpr--g~eElLr~  328 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M--PAVFVDVR--GTEDTLRS  328 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c--eEEEECCC--CHHHHHHH
Confidence            4777889999999999999988542   356899999999999999999997654    1  12222222  67999999


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHhh--hcC-CCcEEEEEeC--CCCcc-cccccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          194 LVKSLGWALTEKDEEDRADRLRLMFS--ESK-SRKILVILDD--VWKEL-DLETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~~~~--~l~-~kr~LlVlDd--v~~~~-~~~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      ++..|+.+.. ....++...+.+.+.  ... +++.+||+-=  -.+.. ...+. ..+.....-|+|++---.+.+...
T Consensus       329 LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~drr~ch~v~evpleslt~~  406 (550)
T PTZ00202        329 VVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDRRLCHVVIEVPLESLTIA  406 (550)
T ss_pred             HHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccchhheeeeeehHhhcchh
Confidence            9999997322 222344444444222  123 6677777652  11111 01111 122333445677765544433211


Q ss_pred             ---hCCCCcccCCCCChHHHHHHHHHHc
Q 038205          268 ---MGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       268 ---~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                         +.....|.+.+++.++|..+-....
T Consensus       407 ~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        407 NTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             cccCccceeEecCCCCHHHHHHHHhhcc
Confidence               1222567788888888887766543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.58  E-value=1.1e-06  Score=83.27  Aligned_cols=198  Identities=19%  Similarity=0.245  Sum_probs=108.0

Q ss_pred             CccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhH
Q 038205          123 SFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  189 (375)
                      .+.|+++.+++|.+.+..             ..++-|.++|++|+|||++|+.+++.....       |+.++.    ..
T Consensus       132 di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~-------~i~v~~----~~  200 (389)
T PRK03992        132 DIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-------FIRVVG----SE  200 (389)
T ss_pred             HhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC-------EEEeeh----HH
Confidence            355888888888876521             235678999999999999999999876521       222211    11


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc------------c----ccccCCCCCC--CC
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL------------D----LETIGIPVGD--RD  250 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~------------~----~~~l~~~l~~--~~  250 (375)
                      +    ....    ...+.    ..++.+++ .-...+.+|+|||++...            .    +..+...+..  ..
T Consensus       201 l----~~~~----~g~~~----~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        201 L----VQKF----IGEGA----RLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             H----hHhh----ccchH----HHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence            1    1111    00111    12222222 223467899999987431            0    1111111111  12


Q ss_pred             CCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH--
Q 038205          251 NCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV--  322 (375)
Q Consensus       251 ~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i--  322 (375)
                      .+..||.||...+....  .   .....+.+.+.+.++-.++|+.++.........  ....+++.+.|.-- -+..+  
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~--~~~~la~~t~g~sgadl~~l~~  346 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDV--DLEELAELTEGASGADLKAICT  346 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcC--CHHHHHHHcCCCCHHHHHHHHH
Confidence            35677777775433221  1   123578999999999999999887532222211  13556677766542 22221  


Q ss_pred             -HHHh--cC---C-CHHHHHHHHHHhhhcc
Q 038205          323 -GSAL--RL---R-TADEWNVALDKLQNAK  345 (375)
Q Consensus       323 -~~~L--~~---~-~~~~w~~~l~~l~~~~  345 (375)
                       |++.  +.   . +.+....+++....+.
T Consensus       347 eA~~~a~~~~~~~i~~~d~~~A~~~~~~~~  376 (389)
T PRK03992        347 EAGMFAIRDDRTEVTMEDFLKAIEKVMGKE  376 (389)
T ss_pred             HHHHHHHHcCCCCcCHHHHHHHHHHHhccc
Confidence             2222  21   1 5667777777765543

>PRK05642 DNA replication initiation factor; Validated

Probab=98.56  E-value=1.4e-06  Score=76.78  Aligned_cols=148  Identities=18%  Similarity=0.154  Sum_probs=88.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.|+|++|+|||.|++.+++.....+  ..++|++...      +...             ..    .+.+   .+.+
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~~~------~~~~-------------~~----~~~~---~~~~   97 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPLAE------LLDR-------------GP----ELLD---NLEQ   97 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeHHH------HHhh-------------hH----HHHH---hhhh
Confidence            5789999999999999999988765332  3455665421      1110             01    1111   2222


Q ss_pred             CcEEEEEeCCCCc---ccccc-cCCCCCC-CCCCcEEEEEeCCh---------hHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          224 RKILVILDDVWKE---LDLET-IGIPVGD-RDNCCKILLTTRLQ---------QVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       224 kr~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~IivTTr~~---------~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                      - -+||+||+...   ..|.. +...+.. ...|..+|+|++..         .+.+++.....+++.+++.++...++.
T Consensus        98 ~-d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~  176 (234)
T PRK05642         98 Y-ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQ  176 (234)
T ss_pred             C-CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHH
Confidence            2 27889999733   24432 2222221 23456788888742         223344445678999999999999999


Q ss_pred             HHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          290 KHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      .++.... -.--+++.+-|++.+.|..-.+..
T Consensus       177 ~ka~~~~-~~l~~ev~~~L~~~~~~d~r~l~~  207 (234)
T PRK05642        177 LRASRRG-LHLTDEVGHFILTRGTRSMSALFD  207 (234)
T ss_pred             HHHHHcC-CCCCHHHHHHHHHhcCCCHHHHHH
Confidence            6654221 111256777788888776555543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.56  E-value=8.2e-07  Score=77.95  Aligned_cols=173  Identities=15%  Similarity=0.099  Sum_probs=96.4

Q ss_pred             CCCCcc-ch-HHHHHHHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          120 FFSSFE-TT-ESACNQIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       120 ~~~~~~-gr-~~~~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      .+..|+ |. +.....+..+... ...+.+.|+|++|+|||+||+.+++.....+ . ...+++.....      ..   
T Consensus        16 ~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~-~-~~~~i~~~~~~------~~---   84 (227)
T PRK08903         16 TFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGG-R-NARYLDAASPL------LA---   84 (227)
T ss_pred             hhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-C-cEEEEehHHhH------HH---
Confidence            345555 33 3444555554442 3456889999999999999999998764322 1 23333322110      00   


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc--ccccCCCCCC-CCCCc-EEEEEeCChhH--------
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD--LETIGIPVGD-RDNCC-KILLTTRLQQV--------  264 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~--~~~l~~~l~~-~~~gs-~IivTTr~~~v--------  264 (375)
                       +                 .   ... ..-+|++||++....  -..+...+.. ...+. .+|+|++....        
T Consensus        85 -~-----------------~---~~~-~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L  142 (227)
T PRK08903         85 -F-----------------D---FDP-EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDL  142 (227)
T ss_pred             -H-----------------h---hcc-cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHH
Confidence             0                 0   122 234788999975422  1122222211 12233 36666654322        


Q ss_pred             HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHh
Q 038205          265 CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSAL  326 (375)
Q Consensus       265 ~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L  326 (375)
                      .+.+.....+++.+++.++-..++.+.+.... ..--++..+.+++.+.|.|..+..+-..|
T Consensus       143 ~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~-v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        143 RTRLGWGLVYELKPLSDADKIAALKAAAAERG-LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            11333346789999999887777776543211 11225677888888999998876665443

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

Probab=98.56  E-value=4e-06  Score=74.83  Aligned_cols=189  Identities=15%  Similarity=0.150  Sum_probs=114.8

Q ss_pred             HHHHHHHHHHHhcC---CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCc----cEEEEEEecCCCChhHHHHHHHHHhCC
Q 038205          128 ESACNQIIEALKKD---STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF----DKVGIATVSQDPSIINVQSELVKSLGW  200 (375)
Q Consensus       128 ~~~~~~l~~~l~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~~~~~i~~~l~~  200 (375)
                      .+.+++|.+++..+   ..+-+.|+|.+|.|||++++.+...+.....-    -.++.+..+..++...+...|+..++.
T Consensus        43 ~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   43 KEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             HHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            45566666666543   46789999999999999999999876542111    136677788899999999999999998


Q ss_pred             CCCCCC-HHHHHHHHHHHhhhcCCCcEEEEEeCCCCc---------ccccccCCCCCCCCCCcEEEEEeCC--------h
Q 038205          201 ALTEKD-EEDRADRLRLMFSESKSRKILVILDDVWKE---------LDLETIGIPVGDRDNCCKILLTTRL--------Q  262 (375)
Q Consensus       201 ~~~~~~-~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~---------~~~~~l~~~l~~~~~gs~IivTTr~--------~  262 (375)
                      +..... ..........++..+  +--+||+|++.+.         ..+..+ ..+...-.-+-|.+-|+.        .
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~--~vrmLIIDE~H~lLaGs~~~qr~~Ln~L-K~L~NeL~ipiV~vGt~~A~~al~~D~  199 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRL--GVRMLIIDEFHNLLAGSYRKQREFLNAL-KFLGNELQIPIVGVGTREAYRALRTDP  199 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHc--CCcEEEeechHHHhcccHHHHHHHHHHH-HHHhhccCCCeEEeccHHHHHHhccCH
Confidence            775443 333344444433333  4449999999763         111111 112221222345555553        3


Q ss_pred             hHHhhhCCCCcccCCCCC-hHHHHHHHHHHcC----CCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          263 QVCYRMGCDPRIKLDALD-QAEGLDLLRKHAG----IDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       263 ~v~~~~~~~~~~~l~~L~-~~e~~~Lf~~~~~----~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      +++..+   ..+.+..-. .++...|+.....    .....-...++++.|...++|+.--+..+
T Consensus       200 QLa~RF---~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  200 QLASRF---EPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHhcc---CCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            333332   334444433 3455556554332    22223344788999999999998766544

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

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.55  E-value=2.2e-06  Score=85.70  Aligned_cols=190  Identities=15%  Similarity=0.203  Sum_probs=105.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCC---c-cEEE-EEEecCCCChhHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNI---F-DKVG-IATVSQDPSIINVQ  191 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f-~~~~-wv~~~~~~~~~~~~  191 (375)
                      |..+...+|.+..+..|..++..++ .+.+.++||.|+||||+|+.++...--.+.   + .|.. -.+....++...  
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvie--   91 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIE--   91 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEE--
Confidence            6667788999999999999998765 456789999999999999999876532110   0 0000 000000000000  


Q ss_pred             HHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEE-EEeCChhHHhh
Q 038205          192 SELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKIL-LTTRLQQVCYR  267 (375)
Q Consensus       192 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Ii-vTTr~~~v~~~  267 (375)
                            +. .......++....+..+.. ...+++-++|+|+++..  ..+..+...+..-...+.+| +|+....+...
T Consensus        92 ------id-aasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~T  164 (725)
T PRK07133         92 ------MD-AASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLT  164 (725)
T ss_pred             ------Ee-ccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHH
Confidence                  00 0000111222222111100 22356679999998754  33444433333222334544 45554555432


Q ss_pred             -hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          268 -MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       268 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                       ......+++.+++.++....+...+....... -...+..|++.++|.+-
T Consensus       165 I~SRcq~ieF~~L~~eeI~~~L~~il~kegI~i-d~eAl~~LA~lS~GslR  214 (725)
T PRK07133        165 ILSRVQRFNFRRISEDEIVSRLEFILEKENISY-EKNALKLIAKLSSGSLR  214 (725)
T ss_pred             HHhhceeEEccCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHH
Confidence             33336789999999999988887653221111 14557788889988664

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.55  E-value=6.7e-07  Score=80.20  Aligned_cols=133  Identities=14%  Similarity=0.244  Sum_probs=69.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.++|++|+||||+|+.+++............++.++..    ++.    ...    ...........+.    ...
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~----~l~----~~~----~g~~~~~~~~~~~----~a~  105 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA----DLV----GEY----IGHTAQKTREVIK----KAL  105 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH----Hhh----hhh----ccchHHHHHHHHH----hcc
Confidence            456789999999999999999887643221111122332221    111    110    0111122222222    222


Q ss_pred             CCcEEEEEeCCCCcc----------cccccCCCCCCCCCCcEEEEEeCChhHHh------h-hCC-CCcccCCCCChHHH
Q 038205          223 SRKILVILDDVWKEL----------DLETIGIPVGDRDNCCKILLTTRLQQVCY------R-MGC-DPRIKLDALDQAEG  284 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~----------~~~~l~~~l~~~~~gs~IivTTr~~~v~~------~-~~~-~~~~~l~~L~~~e~  284 (375)
                        ..+|++|+++...          ..+.+...+........+|+++.......      . ... ...+.+++++.++.
T Consensus       106 --~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el  183 (261)
T TIGR02881       106 --GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEEL  183 (261)
T ss_pred             --CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHH
Confidence              2489999997521          22333333333333345556654332211      1 111 24588999999999


Q ss_pred             HHHHHHHcC
Q 038205          285 LDLLRKHAG  293 (375)
Q Consensus       285 ~~Lf~~~~~  293 (375)
                      .+++.+.+.
T Consensus       184 ~~Il~~~~~  192 (261)
T TIGR02881       184 MEIAERMVK  192 (261)
T ss_pred             HHHHHHHHH
Confidence            999998775

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=3.1e-06  Score=84.43  Aligned_cols=180  Identities=13%  Similarity=0.155  Sum_probs=108.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhh---------------------cCCccE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQ---------------------NNIFDK  175 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~---------------------~~~f~~  175 (375)
                      |..+..++|.+..++.|..++..+.. +.+.++|+.|+||||+|+.+.....-                     ..+|+.
T Consensus        13 P~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         13 PSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            56677889999999999999987764 45889999999999999988776531                     112221


Q ss_pred             EEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCC
Q 038205          176 VGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNC  252 (375)
Q Consensus       176 ~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~g  252 (375)
                      . .+......                    ..++....+..... -..+++-++|+|+++..  ..++.+...+..-...
T Consensus        93 ~-~ld~~~~~--------------------~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~  151 (614)
T PRK14971         93 H-ELDAASNN--------------------SVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSY  151 (614)
T ss_pred             E-EecccccC--------------------CHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCC
Confidence            1 11111111                    11222222211100 12345668899998754  2344444444332334


Q ss_pred             cEEEEEe-CChhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          253 CKILLTT-RLQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       253 s~IivTT-r~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +.+|++| ....+... ......+++.+++.++....+.+.+...... --...+..|++.++|.+--+
T Consensus       152 tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~-i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        152 AIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT-AEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             eEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            5655544 44444433 2333678999999999999888766432211 11456788899999866533

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=4.4e-06  Score=83.35  Aligned_cols=196  Identities=13%  Similarity=0.121  Sum_probs=109.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+...+|.+..+..|..++..+. .+.+.++|+.|+||||+|+.+++...-......     .......-...+.+..
T Consensus        12 P~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-----~~~~Cg~C~~C~~i~~   86 (620)
T PRK14948         12 PQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-----TPEPCGKCELCRAIAA   86 (620)
T ss_pred             CCcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-----CCCCCcccHHHHHHhc
Confidence            5667788899999999999988765 467889999999999999999887642111000     0001111112222222


Q ss_pred             HhCCCC------CCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SLGWAL------TEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l~~~~------~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      ......      .....+...+.+.... ....+++-++|+|+++..  ..+..+...+..-...+.+|++|.+ ..+..
T Consensus        87 g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llp  166 (620)
T PRK14948         87 GNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLP  166 (620)
T ss_pred             CCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhH
Confidence            111100      1111222222222210 012345668999999754  3344444444332234555555543 33332


Q ss_pred             hh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          267 RM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       267 ~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+ .....+++..++.++....+.+.+...... --.+.+..|++.++|.+..+
T Consensus       167 TIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~-is~~al~~La~~s~G~lr~A  219 (620)
T PRK14948        167 TIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE-IEPEALTLVAQRSQGGLRDA  219 (620)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            22 223567888999998888887766432111 11356788899999877644

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.50  E-value=4.6e-06  Score=80.36  Aligned_cols=185  Identities=19%  Similarity=0.204  Sum_probs=106.8

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCc----cE--------------EEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIF----DK--------------VGI  178 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~--------------~~w  178 (375)
                      |..+...+|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+.+...-...-    .+              .-|
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~   92 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDV   92 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCce
Confidence            56678889999999999999987664 568899999999999999998765421000    00              001


Q ss_pred             EEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          179 ATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       179 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      +.+....                  ....++... +.+...  ...+++-++|+|+++..  ...+.+...+......+.
T Consensus        93 ~~i~g~~------------------~~gid~ir~-i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~  153 (451)
T PRK06305         93 LEIDGAS------------------HRGIEDIRQ-INETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVK  153 (451)
T ss_pred             EEeeccc------------------cCCHHHHHH-HHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCce
Confidence            1111100                  001111111 111110  22356778999998644  233333333333233556


Q ss_pred             EEEEeCC-hhHHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          255 ILLTTRL-QQVCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       255 IivTTr~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      +|++|.. ..+... ......+++.+++.++....+.+.+.... ..-..+.++.|++.++|.+- |+..+
T Consensus       154 ~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg-~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        154 FFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG-IETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             EEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            6666543 333222 22335789999999999988887654221 11124567888999998664 44443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.50  E-value=1.9e-06  Score=79.67  Aligned_cols=147  Identities=16%  Similarity=0.153  Sum_probs=85.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+...+|.+...+.+..++..+. +..+.++|++|+||||+|+.+++....     ....++.+. .. ...++..  
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~-----~~~~i~~~~-~~-~~~i~~~--   87 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVNGSD-CR-IDFVRNR--   87 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCc-----cceEeccCc-cc-HHHHHHH--
Confidence            6677888999999999999987765 456677999999999999999886531     112233222 11 1111111  


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--c-cccccCCCCCCCCCCcEEEEEeCChhH-Hhh-hC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--L-DLETIGIPVGDRDNCCKILLTTRLQQV-CYR-MG  269 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~-~~~~l~~~l~~~~~gs~IivTTr~~~v-~~~-~~  269 (375)
                                       +..+..  .+.+.+-++|+||++..  . ....+...+.....++++|+||..... ... .+
T Consensus        88 -----------------l~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~s  150 (316)
T PHA02544         88 -----------------LTRFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRS  150 (316)
T ss_pred             -----------------HHHHHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHh
Confidence                             111111  12245668999999754  1 112222222233456788888865321 111 12


Q ss_pred             CCCcccCCCCChHHHHHHHHH
Q 038205          270 CDPRIKLDALDQAEGLDLLRK  290 (375)
Q Consensus       270 ~~~~~~l~~L~~~e~~~Lf~~  290 (375)
                      ....+.+...+.++...++..
T Consensus       151 R~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        151 RCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             hceEEEeCCCCHHHHHHHHHH
Confidence            224567777777777666543

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

Probab=98.50  E-value=1.5e-06  Score=75.54  Aligned_cols=158  Identities=16%  Similarity=0.150  Sum_probs=90.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.|+|+.|+|||.|++.+++.......-..+++++      ...+...+...+..    ....    .+..   .+.
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~----~~~~----~~~~---~~~   96 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD----GEIE----EFKD---RLR   96 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT----TSHH----HHHH---HHC
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc----ccch----hhhh---hhh
Confidence            34689999999999999999999876543323455553      33455555544421    1111    1222   333


Q ss_pred             CCcEEEEEeCCCCcc---cccc-cCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcccCCCCChHHHHHHH
Q 038205          223 SRKILVILDDVWKEL---DLET-IGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRIKLDALDQAEGLDLL  288 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~---~~~~-l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf  288 (375)
                       .-=+|++||++...   .|.. +...+.. ...|.++|+|+..         +.+.+++.....+++.+++.++...++
T Consensus        97 -~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il  175 (219)
T PF00308_consen   97 -SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRIL  175 (219)
T ss_dssp             -TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHH
T ss_pred             -cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHH
Confidence             34488999997542   2221 1111111 1346689999964         344555666678999999999999999


Q ss_pred             HHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          289 RKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       289 ~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+.+...... --+++.+-|++.+.+..-.+
T Consensus       176 ~~~a~~~~~~-l~~~v~~~l~~~~~~~~r~L  205 (219)
T PF00308_consen  176 QKKAKERGIE-LPEEVIEYLARRFRRDVREL  205 (219)
T ss_dssp             HHHHHHTT---S-HHHHHHHHHHTTSSHHHH
T ss_pred             HHHHHHhCCC-CcHHHHHHHHHhhcCCHHHH
Confidence            9887522211 22556666777666544444

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

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=4.7e-06  Score=81.08  Aligned_cols=181  Identities=15%  Similarity=0.151  Sum_probs=108.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCc-EEEEEcCCCchHHHHHHHHHhhhhhcC--C----------------c-cEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTK-MVGLHGLGGVGKTTLAKFVGNQLRQNN--I----------------F-DKVG  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~--~----------------f-~~~~  177 (375)
                      |..+...+|.+.....|...+..+... .+.++|+.|+||||+|+.+.+..--..  .                + ..++
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~   89 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDII   89 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEE
Confidence            667788899999999999999877654 668999999999999998877653111  0                0 0111


Q ss_pred             EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          178 IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       178 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      .+.....                    ...++..+.+.... .-..+++-++|+|+++..  .....+...+..-...++
T Consensus        90 eldaas~--------------------~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~  149 (535)
T PRK08451         90 EMDAASN--------------------RGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVK  149 (535)
T ss_pred             Eeccccc--------------------cCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceE
Confidence            1111111                    11122222221110 012245669999999754  233444333333334567


Q ss_pred             EEEEeCCh-hHHh-hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          255 ILLTTRLQ-QVCY-RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       255 IivTTr~~-~v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +|++|.+. .+.. .......+++.+++.++....+.+.+...... --.+.+..|++.++|.+--+
T Consensus       150 FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~-i~~~Al~~Ia~~s~GdlR~a  215 (535)
T PRK08451        150 FILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS-YEPEALEILARSGNGSLRDT  215 (535)
T ss_pred             EEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHH
Confidence            77766553 2221 12223678999999999999888766422211 12566788889999888544

>PF14516 AAA_35: AAA-like domain

Probab=98.49  E-value=2e-05  Score=73.07  Aligned_cols=204  Identities=10%  Similarity=0.061  Sum_probs=120.3

Q ss_pred             CCCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-----CChhHHH
Q 038205          117 IPRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-----PSIINVQ  191 (375)
Q Consensus       117 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~  191 (375)
                      +|.+..-.+.|...-+.+.+.+.++ ...+.|.||-.+|||+|...+.+..... .+. .++++...-     .+....+
T Consensus         6 ~~~~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~-~~~-~v~id~~~~~~~~~~~~~~f~   82 (331)
T PF14516_consen    6 LPLDSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GYR-CVYIDLQQLGSAIFSDLEQFL   82 (331)
T ss_pred             CCCCCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHC-CCE-EEEEEeecCCCcccCCHHHHH
Confidence            3444455678887777888777654 4699999999999999999999888764 233 345554431     2445455


Q ss_pred             HHHHHH----hCCCCC--------CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc---c-cccCCCC----C----
Q 038205          192 SELVKS----LGWALT--------EKDEEDRADRLRLMFSESKSRKILVILDDVWKELD---L-ETIGIPV----G----  247 (375)
Q Consensus       192 ~~i~~~----l~~~~~--------~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~---~-~~l~~~l----~----  247 (375)
                      +.++..    ++....        ..+.......+.+++-.-.+++.+|+||+++..-.   + +.+...+    .    
T Consensus        83 ~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~  162 (331)
T PF14516_consen   83 RWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKN  162 (331)
T ss_pred             HHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhccc
Confidence            555544    433211        01112233334442212236899999999975321   1 1111111    0    


Q ss_pred             --CCCCCcEEEEEeC-ChhHH----hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          248 --DRDNCCKILLTTR-LQQVC----YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       248 --~~~~gs~IivTTr-~~~v~----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                        .-.+-+-|++.+. .....    +.++....+.|++|+.+|...|+.++-..-     -....+.|...+||+|.-+.
T Consensus       163 ~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-----~~~~~~~l~~~tgGhP~Lv~  237 (331)
T PF14516_consen  163 NPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-----SQEQLEQLMDWTGGHPYLVQ  237 (331)
T ss_pred             CcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-----CHHHHHHHHHHHCCCHHHHH
Confidence              0001111222221 11111    112334678999999999999998764221     13338999999999999999


Q ss_pred             HHHHHhcC
Q 038205          321 AVGSALRL  328 (375)
Q Consensus       321 ~i~~~L~~  328 (375)
                      .++..+..
T Consensus       238 ~~~~~l~~  245 (331)
T PF14516_consen  238 KACYLLVE  245 (331)
T ss_pred             HHHHHHHH
Confidence            99998864

>TIGR00767 rho transcription termination factor Rho

Probab=98.47  E-value=9.2e-07  Score=82.10  Aligned_cols=94  Identities=11%  Similarity=0.114  Sum_probs=65.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC--CChhHHHHHHHHHhCCCCCCCCHH---HHHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD--PSIINVQSELVKSLGWALTEKDEE---DRADRLR  215 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~---~~~~~l~  215 (375)
                      ...+.++|+|++|+|||||++.+++..... +|+..+|+.+.+.  .++.++++.+...+-....+.+..   .....+.
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            457789999999999999999999988764 7999899998866  688888888854332111111221   1222222


Q ss_pred             HHhh--hcCCCcEEEEEeCCCC
Q 038205          216 LMFS--ESKSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~--~l~~kr~LlVlDdv~~  235 (375)
                      +...  .-.+++++|++|++..
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhH
Confidence            2211  2357999999999864

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

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.46  E-value=2.1e-06  Score=82.71  Aligned_cols=182  Identities=16%  Similarity=0.121  Sum_probs=108.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.|+|+.|+|||+|++.+++.......-..+++++      ...+...+...++..      ......+.+   ... 
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~------~~~~~~~~~---~~~-  205 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKT------HKEIEQFKN---EIC-  205 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHh------hhHHHHHHH---Hhc-
Confidence            4688999999999999999999765432222344443      345666666555321      011112222   333 


Q ss_pred             CcEEEEEeCCCCcc---cc-cccCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          224 RKILVILDDVWKEL---DL-ETIGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       224 kr~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                      +.-+||+||+....   .+ +.+...+.. ...|..||+|+..         +.+..++....++.+++++.++-..++.
T Consensus       206 ~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~  285 (450)
T PRK14087        206 QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIK  285 (450)
T ss_pred             cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHH
Confidence            34489999997532   11 222222211 1334578888763         2334445556778899999999999999


Q ss_pred             HHcCCCCC-CCCchHHHHHHHHHcCCchhHHHHHHH------Hhc--CC--CHHHHHHHHHHh
Q 038205          290 KHAGIDVA-DKTMTDVSKRVADECKGLPLAIKAVGS------ALR--LR--TADEWNVALDKL  341 (375)
Q Consensus       290 ~~~~~~~~-~~~~~~~~~~i~~~~~glPlai~~i~~------~L~--~~--~~~~w~~~l~~l  341 (375)
                      +.+..... ..--+++..-|++.++|.|-.+.-+-.      ++.  .+  +.+.-+.++..+
T Consensus       286 ~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~  348 (450)
T PRK14087        286 KEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDI  348 (450)
T ss_pred             HHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhc
Confidence            88753211 123367889999999999987754332      222  12  555566666554

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=5.2e-06  Score=82.46  Aligned_cols=197  Identities=16%  Similarity=0.173  Sum_probs=106.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+.+...-.+....       ...+.-.....|..
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~-------~~c~~c~~c~~i~~   84 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTA-------EPCNVCPPCVEITE   84 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC-------CCCCccHHHHHHhc
Confidence            66778899999999999999987764 56789999999999999999877542110000       00000000001100


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe-CChhHHh
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT-RLQQVCY  266 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT-r~~~v~~  266 (375)
                      .-...      ......++..+.+.... .-..+++-++|+|+++..  .....+...+..-...+.+|++| ....+..
T Consensus        85 g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~  164 (576)
T PRK14965         85 GRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPI  164 (576)
T ss_pred             CCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhH
Confidence            00000      00011122211111110 012345568999998754  23444433333223345666544 4444443


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKAV  322 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~i  322 (375)
                      . ......+++.+++.++....+...+...... --......|++.++|.. .|+..+
T Consensus       165 tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~-i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        165 TILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS-ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3 2233578899999999888887765422111 12456677888888865 444444

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=6.6e-06  Score=81.18  Aligned_cols=191  Identities=15%  Similarity=0.122  Sum_probs=109.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCC-cEEEEEcCCCchHHHHHHHHHhhhhhcCC---ccEEEEEEecCCCChhHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDST-KMVGLHGLGGVGKTTLAKFVGNQLRQNNI---FDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      |..+...+|.+..+..|..++..+.. +.+.++|+.|+||||+|+.+.+...-...   +.|.      ..    ...+.
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~------~C----~~C~~   81 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCG------EC----SSCKS   81 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCc------cc----hHHHH
Confidence            66778889999999999999987654 46889999999999999999887642110   0000      00    00011


Q ss_pred             HHHHhCCC------CCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hh
Q 038205          194 LVKSLGWA------LTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQ  263 (375)
Q Consensus       194 i~~~l~~~------~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~  263 (375)
                      +...-...      ......++......... .-..+++-++|+|+++..  ..++.+...+..-...+.+|++|.. ..
T Consensus        82 i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~k  161 (563)
T PRK06647         82 IDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHK  161 (563)
T ss_pred             HHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHH
Confidence            11100000      00011122222211110 022456668999998754  3455554444433345566655543 33


Q ss_pred             HHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          264 VCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       264 v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +... ......+++.+++.++....+.+.+.... .+--.+.+..|++.++|.+-.+
T Consensus       162 L~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~eg-i~id~eAl~lLa~~s~GdlR~a  217 (563)
T PRK06647        162 LPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQ-IKYEDEALKWIAYKSTGSVRDA  217 (563)
T ss_pred             hHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            3322 22235688999999999888887764222 1122566777888999877533

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

Probab=98.42  E-value=4.5e-06  Score=78.91  Aligned_cols=197  Identities=18%  Similarity=0.176  Sum_probs=104.3

Q ss_pred             CCccchHHHHHHHHHHHh----c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALK----K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.+..+++|.+.+.    .         ..++-+.++|++|+|||++|+.+++....  .|     +.+..    .
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~--~f-----i~i~~----s  213 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA--TF-----IRVVG----S  213 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC--CE-----EEEeh----H
Confidence            345677777777766542    1         23678999999999999999999987652  22     11111    1


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCCC--CC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVGD--RD  250 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~--~~  250 (375)
                      .+...   .++     .........+..   .....+.+|+||+++...                .+..+...+..  ..
T Consensus       214 ~l~~k---~~g-----e~~~~lr~lf~~---A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~  282 (398)
T PTZ00454        214 EFVQK---YLG-----EGPRMVRDVFRL---ARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQT  282 (398)
T ss_pred             HHHHH---hcc-----hhHHHHHHHHHH---HHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCC
Confidence            11111   111     111122222222   445678999999976320                01111111111  22


Q ss_pred             CCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-H---HH
Q 038205          251 NCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-I---KA  321 (375)
Q Consensus       251 ~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i---~~  321 (375)
                      .+..||.||...+....  .   .....+.+...+.++...+|..+.......++.  ....+++.+.|+--| |   ..
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dv--d~~~la~~t~g~sgaDI~~l~~  360 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEV--DLEDFVSRPEKISAADIAAICQ  360 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCccc--CHHHHHHHcCCCCHHHHHHHHH
Confidence            45678888876443321  2   223568888889999888888766422212211  134566667665433 2   22


Q ss_pred             HHHHh--c-CC---CHHHHHHHHHHhh
Q 038205          322 VGSAL--R-LR---TADEWNVALDKLQ  342 (375)
Q Consensus       322 i~~~L--~-~~---~~~~w~~~l~~l~  342 (375)
                      -|+..  + .+   +.+.+..++.+..
T Consensus       361 eA~~~A~r~~~~~i~~~df~~A~~~v~  387 (398)
T PTZ00454        361 EAGMQAVRKNRYVILPKDFEKGYKTVV  387 (398)
T ss_pred             HHHHHHHHcCCCccCHHHHHHHHHHHH
Confidence            23222  2 11   4566666666543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.40  E-value=1.3e-05  Score=79.37  Aligned_cols=193  Identities=13%  Similarity=0.126  Sum_probs=105.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+..++.|..++..+. .+.+.++|+.|+||||+|+.+.....-...-.       ..+.+.-...+.+..
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~i~~   84 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKAITN   84 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHHHhc
Confidence            6677889999999999999997765 45678899999999999999977653211000       000000011111111


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe-CChhHHh
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT-RLQQVCY  266 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT-r~~~v~~  266 (375)
                      ....+      ......++..+.+..... -..+++-++|+|+++..  ..+..+...+..-...+.+|++| ....+..
T Consensus        85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcH
Confidence            10000      001111222222111100 12456678999999754  33444433333222334555444 4443332


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      . ......+.+.+++.++....+...+....... -......|++.++|.+..
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i-~~~al~~ia~~s~G~~R~  216 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEGIEY-EDEALRLIARAAEGGMRD  216 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHH
Confidence            2 22235678899999999888887664221111 145667788888887653

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.40  E-value=4e-06  Score=75.92  Aligned_cols=131  Identities=15%  Similarity=0.138  Sum_probs=73.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCC
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSR  224 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~k  224 (375)
                      -+.++|++|+||||+|+.++......+.....-++.++.    ..    +...+..    .+.......+.    ..  .
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~----l~~~~~g----~~~~~~~~~~~----~a--~  121 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DD----LVGQYIG----HTAPKTKEILK----RA--M  121 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HH----HhHhhcc----cchHHHHHHHH----Hc--c
Confidence            688999999999999999888776543332223444442    11    2221111    11122222222    22  2


Q ss_pred             cEEEEEeCCCCc-----------ccccccCCCCCCCCCCcEEEEEeCChhHHhhh--C------CCCcccCCCCChHHHH
Q 038205          225 KILVILDDVWKE-----------LDLETIGIPVGDRDNCCKILLTTRLQQVCYRM--G------CDPRIKLDALDQAEGL  285 (375)
Q Consensus       225 r~LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~--~------~~~~~~l~~L~~~e~~  285 (375)
                      .-+|+||++...           .....+...+.....+.+||+++.....-...  +      ....+.+++++.+|..
T Consensus       122 ~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~  201 (284)
T TIGR02880       122 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELL  201 (284)
T ss_pred             CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHH
Confidence            358999998632           11222333333334456777776543221111  1      1256899999999999


Q ss_pred             HHHHHHcC
Q 038205          286 DLLRKHAG  293 (375)
Q Consensus       286 ~Lf~~~~~  293 (375)
                      .++...+.
T Consensus       202 ~I~~~~l~  209 (284)
T TIGR02880       202 VIAGLMLK  209 (284)
T ss_pred             HHHHHHHH
Confidence            99988774

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.

>CHL00181 cbbX CbbX; Provisional

Probab=98.37  E-value=9.8e-06  Score=73.42  Aligned_cols=132  Identities=13%  Similarity=0.125  Sum_probs=73.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.++|++|+||||+|+.+++.....+.-...-|+.++.    ..+    ...+..    .+.......+.    ... 
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~l----~~~~~g----~~~~~~~~~l~----~a~-  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DDL----VGQYIG----HTAPKTKEVLK----KAM-  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HHH----HHHHhc----cchHHHHHHHH----Hcc-
Confidence            3588999999999999999988765432222222444441    122    221110    11111222222    222 


Q ss_pred             CcEEEEEeCCCCc-----------ccccccCCCCCCCCCCcEEEEEeCChhHHhhh--------CCCCcccCCCCChHHH
Q 038205          224 RKILVILDDVWKE-----------LDLETIGIPVGDRDNCCKILLTTRLQQVCYRM--------GCDPRIKLDALDQAEG  284 (375)
Q Consensus       224 kr~LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~--------~~~~~~~l~~L~~~e~  284 (375)
                       .-+|+||++...           +....+...+.....+..||+++....+....        .....+.+++++.+|.
T Consensus       123 -ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el  201 (287)
T CHL00181        123 -GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEEL  201 (287)
T ss_pred             -CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHH
Confidence             249999998642           11222222233333456777777644332111        1235789999999999


Q ss_pred             HHHHHHHcC
Q 038205          285 LDLLRKHAG  293 (375)
Q Consensus       285 ~~Lf~~~~~  293 (375)
                      .+++...+.
T Consensus       202 ~~I~~~~l~  210 (287)
T CHL00181        202 LQIAKIMLE  210 (287)
T ss_pred             HHHHHHHHH
Confidence            999988874

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.34  E-value=7.6e-06  Score=84.73  Aligned_cols=203  Identities=19%  Similarity=0.243  Sum_probs=115.3

Q ss_pred             ccchHHHHHHHHHHHhc---CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCCCCh---hHHHHHHHH
Q 038205          124 FETTESACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQDPSI---INVQSELVK  196 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~---~~~~~~i~~  196 (375)
                      ++||+.+++.|...+..   +...++.+.|.+|||||++++.|....... +.|-...+-....+...   ...++++..
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            67999999999998843   557799999999999999999999887654 22222112112222211   122333333


Q ss_pred             Hh-------------------CCC--------------CC------CCCH---HHHHH-HHHHHhh-hc-CCCcEEEEEe
Q 038205          197 SL-------------------GWA--------------LT------EKDE---EDRAD-RLRLMFS-ES-KSRKILVILD  231 (375)
Q Consensus       197 ~l-------------------~~~--------------~~------~~~~---~~~~~-~l~~~~~-~l-~~kr~LlVlD  231 (375)
                      ++                   +..              ..      +.++   ..... .+...+. .. +.++.++|+|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence            22                   110              00      0000   00000 1111111 22 3469999999


Q ss_pred             CCCCcc--cc---cccCCCCC---CCCCCcEEEEEeCCh--hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCc
Q 038205          232 DVWKEL--DL---ETIGIPVG---DRDNCCKILLTTRLQ--QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTM  301 (375)
Q Consensus       232 dv~~~~--~~---~~l~~~l~---~~~~gs~IivTTr~~--~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~  301 (375)
                      |+.-.+  .+   +.+.....   ...+-...+.|.+..  .+-......+.+.|.||+..+...+.....+...  ...
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~--~~~  239 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK--LLP  239 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc--ccc
Confidence            995321  11   11111111   001112222333322  2222233347899999999999999999887532  223


Q ss_pred             hHHHHHHHHHcCCchhHHHHHHHHhcC
Q 038205          302 TDVSKRVADECKGLPLAIKAVGSALRL  328 (375)
Q Consensus       302 ~~~~~~i~~~~~glPlai~~i~~~L~~  328 (375)
                      .+..+.|+++..|+|+-+..+-..|..
T Consensus       240 ~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         240 APLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             chHHHHHHHHhcCCCccHHHHHHHHHh
Confidence            567899999999999999888777754

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.32  E-value=1.1e-05  Score=84.08  Aligned_cols=159  Identities=16%  Similarity=0.194  Sum_probs=92.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC----ccEEEEEEecCCCChhHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI----FDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      |..+.+.+||+.++++++..|......-+.++|++|+|||++|+.+.........    ....+|..     ++.    .
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~----~  239 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMG----A  239 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHH----H
Confidence            5567889999999999999997776667779999999999999999887643211    12223321     111    1


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHhhhcC--CCcEEEEEeCCCCcc---------cccccCCCCCCCCCCcEEEEEeCCh
Q 038205          194 LVKSLGWALTEKDEEDRADRLRLMFSESK--SRKILVILDDVWKEL---------DLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~~~~~l~--~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      +..  +...    ..+....+..++..+.  +++.+|++|+++...         +...+..+... ....++|-+|..+
T Consensus       240 l~a--~~~~----~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~-~g~i~~IgaTt~~  312 (852)
T TIGR03346       240 LIA--GAKY----RGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA-RGELHCIGATTLD  312 (852)
T ss_pred             Hhh--cchh----hhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh-cCceEEEEeCcHH
Confidence            110  0000    0122233333333332  468999999987431         11112222221 1224566555544


Q ss_pred             hHHh-------hhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          263 QVCY-------RMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       263 ~v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ....       .......+.+...+.++...++....
T Consensus       313 e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       313 EYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            3321       11223567888889999999987653

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.

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

Probab=98.31  E-value=5e-06  Score=85.26  Aligned_cols=158  Identities=15%  Similarity=0.168  Sum_probs=93.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC---Cc-cEEEEEEecCCCChhHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN---IF-DKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f-~~~~wv~~~~~~~~~~~~~~  193 (375)
                      |..+.+++||+++++.++..|......-+.++|++|+|||++|+.+++......   .+ ...+|.. +    ..    .
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~-~----~~----~  248 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL-D----MG----S  248 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe-c----HH----H
Confidence            566788999999999999999777666778999999999999999998874321   11 2333321 1    11    1


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHhhhcC-CCcEEEEEeCCCCcc--------cc--cc-cCCCCCCCCCCcEEEEEeCC
Q 038205          194 LVKSLGWALTEKDEEDRADRLRLMFSESK-SRKILVILDDVWKEL--------DL--ET-IGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~~~~~l~-~kr~LlVlDdv~~~~--------~~--~~-l~~~l~~~~~gs~IivTTr~  261 (375)
                      +....      .-..+....+..+++.+. .++.+|++|+++...        ..  .. +...+. . ...++|-+|..
T Consensus       249 l~a~~------~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~-~-g~i~~IgaTt~  320 (731)
T TIGR02639       249 LLAGT------KYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS-S-GKLRCIGSTTY  320 (731)
T ss_pred             Hhhhc------cccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh-C-CCeEEEEecCH
Confidence            11100      001123334444443443 468899999986321        11  11 222221 1 12355555543


Q ss_pred             hhHHh-------hhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          262 QQVCY-------RMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       262 ~~v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .+...       .......+.+..++.++..++++...
T Consensus       321 ~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       321 EEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            22211       11223578999999999999998654

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

Probab=98.30  E-value=1.1e-05  Score=70.69  Aligned_cols=175  Identities=19%  Similarity=0.211  Sum_probs=104.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..|+|.++..++|.=.+..     .....+.++||+|.||||||..+++...+.  +..    +......-..-+.
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~k~----tsGp~leK~gDla   95 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--LKI----TSGPALEKPGDLA   95 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--eEe----cccccccChhhHH
Confidence            77788999999988888666632     346789999999999999999999988754  111    1111001111111


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccc---------------cCCCCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLET---------------IGIPVGD  248 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~---------------l~~~l~~  248 (375)
                      .++.                       .|+.. =+|.+|++....         .+++               +...++ 
T Consensus        96 aiLt-----------------------~Le~~-DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLp-  150 (332)
T COG2255          96 AILT-----------------------NLEEG-DVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLP-  150 (332)
T ss_pred             HHHh-----------------------cCCcC-CeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCC-
Confidence            2222                       22222 234455554220         0111               111222 


Q ss_pred             CCCCcEEEEEeCChhHHhhhC--CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHh
Q 038205          249 RDNCCKILLTTRLQQVCYRMG--CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSAL  326 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~~~~--~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L  326 (375)
                        +-+-|=-|||.-.+...+.  ...+.+++..+.+|..++..+.+..-. ..-..+-+.+|+++..|-|--..-+-+..
T Consensus       151 --pFTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~-i~i~~~~a~eIA~rSRGTPRIAnRLLrRV  227 (332)
T COG2255         151 --PFTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILG-IEIDEEAALEIARRSRGTPRIANRLLRRV  227 (332)
T ss_pred             --CeeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhC-CCCChHHHHHHHHhccCCcHHHHHHHHHH
Confidence              2234557898655433322  225678999999999999998875221 11225678899999999997555443333

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.28  E-value=9.1e-06  Score=84.40  Aligned_cols=158  Identities=13%  Similarity=0.171  Sum_probs=90.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC----ccEEE-EEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI----FDKVG-IATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~-wv~~~~~~~~~~~~~  192 (375)
                      |..+.+.+||+.+++.++..|......-+.++|++|+|||++|+.+.........    ....+ .+..+.      ++ 
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~-  246 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV-  246 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh-
Confidence            5667889999999999999998776667789999999999999999988743211    11222 222221      00 


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc---------cccccCCCCCCCCCCcEEEEEeCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKEL---------DLETIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~IivTTr~  261 (375)
                         .  +.    ....+....+..++..+  .+++.+|++|+++...         +...+..+.... ...++|-+|..
T Consensus       247 ---a--g~----~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt~  316 (857)
T PRK10865        247 ---A--GA----KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTL  316 (857)
T ss_pred             ---h--cc----chhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCCC
Confidence               0  00    00111222233322222  3578999999986431         111222222211 23466665555


Q ss_pred             hhHHhh-------hCCCCcccCCCCChHHHHHHHHHHc
Q 038205          262 QQVCYR-------MGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       262 ~~v~~~-------~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ++....       ......+.+...+.++...+++...
T Consensus       317 ~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        317 DEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            443111       1122356666668888888887654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.28  E-value=1.1e-05  Score=77.09  Aligned_cols=179  Identities=20%  Similarity=0.187  Sum_probs=102.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.|+|++|+|||+|++.+++.......-..+++++.      ..+...+...+...    ....    +.+   .+.+
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~----~~~~----~~~---~~~~  199 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN----KMEE----FKE---KYRS  199 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC----CHHH----HHH---HHHh
Confidence            46889999999999999999998765421123455532      23344444444211    1111    222   2222


Q ss_pred             CcEEEEEeCCCCccc---c-cccCCCCCC-CCCCcEEEEEeCCh---------hHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          224 RKILVILDDVWKELD---L-ETIGIPVGD-RDNCCKILLTTRLQ---------QVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       224 kr~LlVlDdv~~~~~---~-~~l~~~l~~-~~~gs~IivTTr~~---------~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                       .-+|+|||++....   + +.+...+.. ...|..+|+|+...         .+...+.....+.+.+.+.++-..++.
T Consensus       200 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~  278 (405)
T TIGR00362       200 -VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQ  278 (405)
T ss_pred             -CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHH
Confidence             34899999975321   1 112111111 12345677877641         122333334578999999999999999


Q ss_pred             HHcCCCCCCCCchHHHHHHHHHcCCchhHHH----HHHHH---hcCC-CHHHHHHHHHHh
Q 038205          290 KHAGIDVADKTMTDVSKRVADECKGLPLAIK----AVGSA---LRLR-TADEWNVALDKL  341 (375)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~i~~~~~glPlai~----~i~~~---L~~~-~~~~w~~~l~~l  341 (375)
                      +.+.... ..--+++..-|++.+.|.+-.+.    .+..+   .... +....++++..+
T Consensus       279 ~~~~~~~-~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       279 KKAEEEG-LELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDL  337 (405)
T ss_pred             HHHHHcC-CCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence            8876322 11225777888888888766433    22211   1122 667777777654

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

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.28  E-value=0.00011  Score=68.64  Aligned_cols=205  Identities=11%  Similarity=0.085  Sum_probs=124.4

Q ss_pred             CCCCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          120 FFSSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ......||+.+++.+.+++..    ...+.+-|.|-+|.|||.+...++.+......-..++++..-.-.....++..|+
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            345678999999999998743    4577889999999999999999998877543223445665555466778888888


Q ss_pred             HHhCC-CCCCCCHHHHHHHHHHHhhhcCC--CcEEEEEeCCCCcc--cccccCCCCCC-CCCCcEEEEEeCC------hh
Q 038205          196 KSLGW-ALTEKDEEDRADRLRLMFSESKS--RKILVILDDVWKEL--DLETIGIPVGD-RDNCCKILLTTRL------QQ  263 (375)
Q Consensus       196 ~~l~~-~~~~~~~~~~~~~l~~~~~~l~~--kr~LlVlDdv~~~~--~~~~l~~~l~~-~~~gs~IivTTr~------~~  263 (375)
                      ..+.. ........+....+..   ...+  .-+|+|+|+.+...  .-..+...|.+ .-+++++|+.---      +.
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~---h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEK---HTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHH---HHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            87722 1122222333344444   5544  46899999987531  11111112211 2245665544321      11


Q ss_pred             HHhhhCC-----CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc
Q 038205          264 VCYRMGC-----DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR  327 (375)
Q Consensus       264 v~~~~~~-----~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~  327 (375)
                      ....+..     ...+...|.+.++..++|...+......+.+....+..+++|.|.---+..+-.+.+
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence            1222222     256788999999999999998865444444444555566666555444444433333

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.28  E-value=2.4e-05  Score=75.33  Aligned_cols=192  Identities=19%  Similarity=0.172  Sum_probs=106.8

Q ss_pred             HHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHH
Q 038205          132 NQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDR  210 (375)
Q Consensus       132 ~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~  210 (375)
                      .....+..+++ ...+.|+|++|+|||+|++.+++.......-..+.|++.      .++..++...+...    ...  
T Consensus       118 ~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~----~~~--  185 (440)
T PRK14088        118 HAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG----KLN--  185 (440)
T ss_pred             HHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc----cHH--
Confidence            34444443322 346999999999999999999998764322124555543      34555555554211    111  


Q ss_pred             HHHHHHHhhhcCCCcEEEEEeCCCCcc---cc-cccCCCCCC-CCCCcEEEEEeC-Chh--------HHhhhCCCCcccC
Q 038205          211 ADRLRLMFSESKSRKILVILDDVWKEL---DL-ETIGIPVGD-RDNCCKILLTTR-LQQ--------VCYRMGCDPRIKL  276 (375)
Q Consensus       211 ~~~l~~~~~~l~~kr~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~IivTTr-~~~--------v~~~~~~~~~~~l  276 (375)
                        .+.+   ....+.-+|++||++...   .. ..+...+.. ...|..||+||. .+.        +..++.....+.+
T Consensus       186 --~f~~---~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i  260 (440)
T PRK14088        186 --EFRE---KYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKL  260 (440)
T ss_pred             --HHHH---HHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEee
Confidence              1222   333345689999997431   11 112111111 123457888874 322        1223344457889


Q ss_pred             CCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH----HH--HHhcC-C-CHHHHHHHHHHh
Q 038205          277 DALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA----VG--SALRL-R-TADEWNVALDKL  341 (375)
Q Consensus       277 ~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~----i~--~~L~~-~-~~~~w~~~l~~l  341 (375)
                      ++.+.+.-..++.+.+..... .--.++..-|++.+.|..-.+.-    +.  +.+.. . +...-++++..+
T Consensus       261 ~~pd~e~r~~IL~~~~~~~~~-~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~  332 (440)
T PRK14088        261 EPPDEETRKKIARKMLEIEHG-ELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF  332 (440)
T ss_pred             CCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            999999999999988753221 12256778888888775443321    11  11122 2 666666666654

>PRK06620 hypothetical protein; Validated

Probab=98.25  E-value=6e-06  Score=71.53  Aligned_cols=134  Identities=17%  Similarity=0.033  Sum_probs=78.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      +.+.|+|++|+|||+|++.+++....       .++.  ..+.                   . .       .   .. .
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-------~~~~--~~~~-------------------~-~-------~---~~-~   84 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-------YIIK--DIFF-------------------N-E-------E---IL-E   84 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-------EEcc--hhhh-------------------c-h-------h---HH-h
Confidence            56899999999999999987775531       1111  0000                   0 0       0   11 1


Q ss_pred             CcEEEEEeCCCCcccccccCCCCCC-CCCCcEEEEEeCCh-------hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCC
Q 038205          224 RKILVILDDVWKELDLETIGIPVGD-RDNCCKILLTTRLQ-------QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGID  295 (375)
Q Consensus       224 kr~LlVlDdv~~~~~~~~l~~~l~~-~~~gs~IivTTr~~-------~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~  295 (375)
                      ..-+|++||++...+ ..+...+.. ...|..+|+|++..       .+.+++....++++++++.++...++.+.+...
T Consensus        85 ~~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         85 KYNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             cCCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            234788999974321 111111110 13466888988742       234445555689999999999888888776422


Q ss_pred             CCCCCchHHHHHHHHHcCCchhHH
Q 038205          296 VADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       296 ~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      . -.--+++.+-|++.+.|..-.+
T Consensus       164 ~-l~l~~ev~~~L~~~~~~d~r~l  186 (214)
T PRK06620        164 S-VTISRQIIDFLLVNLPREYSKI  186 (214)
T ss_pred             C-CCCCHHHHHHHHHHccCCHHHH
Confidence            1 1122566777777777654443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.24  E-value=1.1e-05  Score=83.80  Aligned_cols=157  Identities=19%  Similarity=0.229  Sum_probs=91.0

Q ss_pred             CCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHH
Q 038205          119 RFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      ..+.+.+||+++++.++..|......-+.++|++|+|||++|+.++.......    .-...+|. +    +...    +
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~----l  246 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGL----L  246 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHH----H
Confidence            34567899999999999999876666678999999999999999988875321    11233442 1    1111    1


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcc-------c--ccccCCCCCCCCCCcEEEEEeCChhH
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKEL-------D--LETIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~-------~--~~~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                      +.  +...    ..+....+..+++.+ ..++.+|++|+++...       .  ...+..+... ....++|.+|..+..
T Consensus       247 ~a--g~~~----~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~-rg~l~~IgaTt~~ey  319 (821)
T CHL00095        247 LA--GTKY----RGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA-RGELQCIGATTLDEY  319 (821)
T ss_pred             hc--cCCC----ccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh-CCCcEEEEeCCHHHH
Confidence            11  1111    112333444433333 3468999999986321       1  1112111111 122466666665443


Q ss_pred             Hhh-------hCCCCcccCCCCChHHHHHHHHHH
Q 038205          265 CYR-------MGCDPRIKLDALDQAEGLDLLRKH  291 (375)
Q Consensus       265 ~~~-------~~~~~~~~l~~L~~~e~~~Lf~~~  291 (375)
                      ...       ......+.+...+.++...+++..
T Consensus       320 ~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        320 RKHIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            221       122356788888989988888753

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.24  E-value=2.9e-05  Score=75.30  Aligned_cols=193  Identities=17%  Similarity=0.155  Sum_probs=109.5

Q ss_pred             HHHHHHHHHhcC--CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCH
Q 038205          130 ACNQIIEALKKD--STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDE  207 (375)
Q Consensus       130 ~~~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  207 (375)
                      ....+..+...+  ....+.|+|++|+|||+|++.+++.......-..+.+++.      ..+...+...+..    ...
T Consensus       133 a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~------~~~~~~~~~~~~~----~~~  202 (450)
T PRK00149        133 AHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS------EKFTNDFVNALRN----NTM  202 (450)
T ss_pred             HHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHHc----CcH
Confidence            344444444332  2356899999999999999999998875422223445533      2333444444321    111


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----ccccCCCCCC-CCCCcEEEEEeCCh---------hHHhhhCCCCc
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKELD----LETIGIPVGD-RDNCCKILLTTRLQ---------QVCYRMGCDPR  273 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~gs~IivTTr~~---------~v~~~~~~~~~  273 (375)
                          ..+.+   .+. +.-+|+|||++....    .+.+...+.. ...|..+|+||...         .+.+.+.....
T Consensus       203 ----~~~~~---~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~  274 (450)
T PRK00149        203 ----EEFKE---KYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLT  274 (450)
T ss_pred             ----HHHHH---HHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCee
Confidence                11222   333 344899999974311    1122221111 12345677777642         12334444567


Q ss_pred             ccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH----HHHHHH--hc-CC-CHHHHHHHHHHh
Q 038205          274 IKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI----KAVGSA--LR-LR-TADEWNVALDKL  341 (375)
Q Consensus       274 ~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai----~~i~~~--L~-~~-~~~~w~~~l~~l  341 (375)
                      +.+++.+.++...++.+.+.... ..--+++..-|++.++|..-.+    ..+..+  +. .. +....+.++..+
T Consensus       275 v~i~~pd~~~r~~il~~~~~~~~-~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        275 VDIEPPDLETRIAILKKKAEEEG-IDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             EEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            89999999999999999875321 1222567888888888876643    222221  11 22 677778887765

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.22  E-value=1e-05  Score=76.68  Aligned_cols=134  Identities=22%  Similarity=0.187  Sum_probs=83.0

Q ss_pred             hHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCC
Q 038205          127 TESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKD  206 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~  206 (375)
                      +.....++.+.+..... ++.|.||-++||||+++.+.......     .+++........                   
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~-------------------   76 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLD-------------------   76 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcc-------------------
Confidence            44555666666554444 99999999999999997776655432     334432221110                   


Q ss_pred             HHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh-----h-hCCCCcccCCCCC
Q 038205          207 EEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY-----R-MGCDPRIKLDALD  280 (375)
Q Consensus       207 ~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~-----~-~~~~~~~~l~~L~  280 (375)
                      .....+.+..+...-..++..++||+|+....|......+.+..+. +|++|+.+..+..     . .+....+.+-||+
T Consensus        77 ~~~l~d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlS  155 (398)
T COG1373          77 RIELLDLLRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLS  155 (398)
T ss_pred             hhhHHHHHHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCC
Confidence            0111111222111222278899999999999998766666655555 8888887654422     2 2334678999999


Q ss_pred             hHHHHH
Q 038205          281 QAEGLD  286 (375)
Q Consensus       281 ~~e~~~  286 (375)
                      -.|...
T Consensus       156 F~Efl~  161 (398)
T COG1373         156 FREFLK  161 (398)
T ss_pred             HHHHHh
Confidence            988865

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.22  E-value=3.5e-05  Score=71.08  Aligned_cols=157  Identities=11%  Similarity=0.081  Sum_probs=88.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcC-------------------CccEEEEEEecCCCChhHHHHHHHHHhCCCCC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNN-------------------IFDKVGIATVSQDPSIINVQSELVKSLGWALT  203 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  203 (375)
                      .+.+.++|+.|+||||+|+.+....--.+                   ..+...|+.-...                 ..
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-----------------~~   84 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-----------------DK   84 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-----------------CC
Confidence            56788999999999999999877654211                   0111222211000                 00


Q ss_pred             CCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh-hHHhhh-CCCCcccCCC
Q 038205          204 EKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ-QVCYRM-GCDPRIKLDA  278 (375)
Q Consensus       204 ~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~~-~~~~~~~l~~  278 (375)
                      ....++..+....+.. ...+++-++|+|+++..  .....+...+..-..++.+|+||.+. .+.... +.-..+++.+
T Consensus        85 ~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~  164 (328)
T PRK05707         85 TIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPL  164 (328)
T ss_pred             CCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCC
Confidence            1122233322222111 22345556678999754  33333333333323457777777764 333332 3336789999


Q ss_pred             CChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          279 LDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       279 L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      ++.+++.+.+......     ...+.+..++..++|.|+....
T Consensus       165 ~~~~~~~~~L~~~~~~-----~~~~~~~~~l~la~Gsp~~A~~  202 (328)
T PRK05707        165 PSNEESLQWLQQALPE-----SDERERIELLTLAGGSPLRALQ  202 (328)
T ss_pred             cCHHHHHHHHHHhccc-----CChHHHHHHHHHcCCCHHHHHH
Confidence            9999999988876421     1134456778899999985543

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.21  E-value=1.3e-06  Score=80.26  Aligned_cols=217  Identities=20%  Similarity=0.231  Sum_probs=128.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEE-EEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVG-IATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~-wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      .+.+.++|+||+||||++-++.. ..  ..|..-. ++....-.+...+.-.+...++.....  .+.....+..   ..
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~~--~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~--g~~~~~~~~~---~~   85 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-AA--SEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP--GDSAVDTLVR---RI   85 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-Hh--hhcccceeeeeccccCchhHhHHHHHhhccccccc--chHHHHHHHH---HH
Confidence            57899999999999999999888 44  3365544 444444444444444444445544322  2233334444   77


Q ss_pred             CCCcEEEEEeCCCCcc-cccccCCCCCCCCCCcEEEEEeCChhHHhhhCCCCcccCCCCChH-HHHHHHHHHcCCC----
Q 038205          222 KSRKILVILDDVWKEL-DLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQA-EGLDLLRKHAGID----  295 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~-~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~~~l~~L~~~-e~~~Lf~~~~~~~----  295 (375)
                      .++|.++|+||..+.. .-..+...+..+.+.-.|+.|+|....   ........+.+|+.. ++.++|...+...    
T Consensus        86 ~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          86 GDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccce
Confidence            7899999999986542 212222223334445578888886432   234456677777764 7889987765311    


Q ss_pred             CCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHH-HhhhcccCCCCCCCCCchhhhhhhhhhccCCC
Q 038205          296 VADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALD-KLQNAKLDKIEGIDKDSRGVYGCLKFSYDYLN  371 (375)
Q Consensus       296 ~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~-~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~  371 (375)
                      ...........+|.++.+|.|++|...++..+.....+--.-++ .+..-.. .-.....-+....+.+.+||.-|.
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~-~~r~a~~~~qtl~asl~ws~~lLt  238 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTG-GARLAVLRQQTLRASLDWSYALLT  238 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhc-ccccchhHHHhccchhhhhhHhhh
Confidence            11223356788999999999999999999888765433222111 1111000 001111123456777888886654

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

Probab=98.20  E-value=2e-05  Score=75.10  Aligned_cols=197  Identities=18%  Similarity=0.174  Sum_probs=105.2

Q ss_pred             CCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.+..+++|.+.+.-             ..+.-+.++|++|+|||++|+.+++....  .|     +.+...    
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~--~f-----i~V~~s----  251 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA--TF-----LRVVGS----  251 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC--CE-----EEEecc----
Confidence            3456778888877776521             23567889999999999999999997653  23     222111    


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCCC--CC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVGD--RD  250 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~--~~  250 (375)
                      .+.    ...    ...........+..   .....+.+|+||+++...                .+..+...+..  ..
T Consensus       252 eL~----~k~----~Ge~~~~vr~lF~~---A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        252 ELI----QKY----LGDGPKLVRELFRV---AEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             hhh----hhh----cchHHHHHHHHHHH---HHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence            111    110    00111112222222   334578899999875320                01111111111  13


Q ss_pred             CCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-H---HH
Q 038205          251 NCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-I---KA  321 (375)
Q Consensus       251 ~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i---~~  321 (375)
                      .+..||.||...+....  .   .....+.+...+.++..++|..+.......++.  ....++..+.|+--| |   ..
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dv--dl~~la~~t~g~sgAdI~~i~~  398 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDV--DLEEFIMAKDELSGADIKAICT  398 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCc--CHHHHHHhcCCCCHHHHHHHHH
Confidence            35678888876544332  1   123578999999999999999876422211111  124555566554432 2   22


Q ss_pred             HHHHh--cC---C-CHHHHHHHHHHhh
Q 038205          322 VGSAL--RL---R-TADEWNVALDKLQ  342 (375)
Q Consensus       322 i~~~L--~~---~-~~~~w~~~l~~l~  342 (375)
                      -|+.+  +.   . +.+.+..++++..
T Consensus       399 eA~~~Alr~~r~~Vt~~D~~~A~~~v~  425 (438)
T PTZ00361        399 EAGLLALRERRMKVTQADFRKAKEKVL  425 (438)
T ss_pred             HHHHHHHHhcCCccCHHHHHHHHHHHH
Confidence            23332  21   2 5666766666643

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.18  E-value=3.9e-05  Score=75.30  Aligned_cols=199  Identities=19%  Similarity=0.204  Sum_probs=104.3

Q ss_pred             CCCCccchHHHHHHHHHHH---hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEAL---KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..+.|.++...++.+.+   ..         ..++-+.++||+|+|||+||+.+++.....       ++.++.    
T Consensus        53 ~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~-------~~~i~~----  121 (495)
T TIGR01241        53 TFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-------FFSISG----  121 (495)
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC-------eeeccH----
Confidence            3455667776665555433   21         224568899999999999999998875421       222221    


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCC--CC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVG--DR  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~  249 (375)
                      ..+.    ...    ...........+..   .....+.+|+|||++...                .+..+...+.  ..
T Consensus       122 ~~~~----~~~----~g~~~~~l~~~f~~---a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~  190 (495)
T TIGR01241       122 SDFV----EMF----VGVGASRVRDLFEQ---AKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT  190 (495)
T ss_pred             HHHH----HHH----hcccHHHHHHHHHH---HHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC
Confidence            1111    111    01112222333333   444577999999986421                0111111111  12


Q ss_pred             CCCcEEEEEeCChhHHh-----hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHHHH
Q 038205          250 DNCCKILLTTRLQQVCY-----RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKAVG  323 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~~-----~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~i~  323 (375)
                      ..+..||.||.......     .......+.+...+.++-.++|+.++......++  .....+++.+.|.- --|..+.
T Consensus       191 ~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~--~~l~~la~~t~G~sgadl~~l~  268 (495)
T TIGR01241       191 NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPD--VDLKAVARRTPGFSGADLANLL  268 (495)
T ss_pred             CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcc--hhHHHHHHhCCCCCHHHHHHHH
Confidence            23455666676543211     1123367888888999999999887753221211  22457778887743 3333322


Q ss_pred             H---Hh--c-CC---CHHHHHHHHHHhh
Q 038205          324 S---AL--R-LR---TADEWNVALDKLQ  342 (375)
Q Consensus       324 ~---~L--~-~~---~~~~w~~~l~~l~  342 (375)
                      .   +.  + ++   +.+..+.+++...
T Consensus       269 ~eA~~~a~~~~~~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       269 NEAALLAARKNKTEITMNDIEEAIDRVI  296 (495)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence            1   11  1 21   5566776666543

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.

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

Probab=98.18  E-value=1.2e-05  Score=68.22  Aligned_cols=68  Identities=18%  Similarity=0.199  Sum_probs=50.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      |..+...+|-++.++.+.-...+++.+-+.|.||+|+||||-+..+++..-...+-+.+.-.+.|...
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeR   90 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDER   90 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcccc
Confidence            44556788999999998887888889999999999999999888888776543333334444444433

>CHL00176 ftsH cell division protein; Validated

Probab=98.18  E-value=3e-05  Score=77.58  Aligned_cols=172  Identities=21%  Similarity=0.237  Sum_probs=95.2

Q ss_pred             CCCCccchHHHHHHHHH---HHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIE---ALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~---~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+....|.++..+.+.+   .+...         .++-+.++||+|+|||+||+.+++.....       ++.++..   
T Consensus       181 ~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-------~i~is~s---  250 (638)
T CHL00176        181 TFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-------FFSISGS---  250 (638)
T ss_pred             CHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-------eeeccHH---
Confidence            34556676665555444   34322         24568999999999999999998865421       2222211   


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCCC--C
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVGD--R  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~--~  249 (375)
                       .+. ...  .+     .........+..   .....+++|+|||++...                .+..+...+..  .
T Consensus       251 -~f~-~~~--~g-----~~~~~vr~lF~~---A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~  318 (638)
T CHL00176        251 -EFV-EMF--VG-----VGAARVRDLFKK---AKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG  318 (638)
T ss_pred             -HHH-HHh--hh-----hhHHHHHHHHHH---HhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC
Confidence             111 000  00     111222333333   556688999999996321                12222222211  2


Q ss_pred             CCCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          250 DNCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      ..+..||.||...+....  .   .....+.+...+.++-.++++.++......+  ......+++.+.|.
T Consensus       319 ~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~--d~~l~~lA~~t~G~  387 (638)
T CHL00176        319 NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSP--DVSLELIARRTPGF  387 (638)
T ss_pred             CCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccch--hHHHHHHHhcCCCC
Confidence            345567777766443221  1   2236788888899999999998875422111  23456777777773

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.13  E-value=3.7e-05  Score=75.62  Aligned_cols=179  Identities=15%  Similarity=0.149  Sum_probs=101.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.|+|..|+|||.|++.+++.......-..+++++.      ..+..++...+..    ..    ...+.+   .+. 
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~----~~----~~~f~~---~y~-  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRD----GK----GDSFRR---RYR-  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHh----cc----HHHHHH---Hhh-
Confidence            45899999999999999999998764221223445532      3344444443321    01    111222   222 


Q ss_pred             CcEEEEEeCCCCc---cccc-ccCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          224 RKILVILDDVWKE---LDLE-TIGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       224 kr~LlVlDdv~~~---~~~~-~l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                      +--+|||||+...   ..|. .+...+.. ...|..|||||..         ..+...+....++.+.+.+.+.-..++.
T Consensus       377 ~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~  456 (617)
T PRK14086        377 EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILR  456 (617)
T ss_pred             cCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHH
Confidence            2348999999754   1221 12222211 1335678888875         2344556666788999999999999999


Q ss_pred             HHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHH------HhcCC--CHHHHHHHHHHh
Q 038205          290 KHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGS------ALRLR--TADEWNVALDKL  341 (375)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~------~L~~~--~~~~w~~~l~~l  341 (375)
                      +++...... --.++.+-|++.+.+..-.|.-+-.      .+..+  +...-+.++..+
T Consensus       457 kka~~r~l~-l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~  515 (617)
T PRK14086        457 KKAVQEQLN-APPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDL  515 (617)
T ss_pred             HHHHhcCCC-CCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            887533211 1256677777777655443322111      11222  555566666654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=0.00011  Score=67.53  Aligned_cols=195  Identities=12%  Similarity=0.091  Sum_probs=106.7

Q ss_pred             CCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhc-------------CCccEEEEEEecCCCC
Q 038205          121 FSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQN-------------NIFDKVGIATVSQDPS  186 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------~~f~~~~wv~~~~~~~  186 (375)
                      +...+|.+..++.+...+..+. .+...++|+.|+||+++|..+.+..--.             ..++...|+.-.....
T Consensus         3 f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          3 FANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccc
Confidence            3567899999999999998876 4799999999999999999887765321             1122233432110000


Q ss_pred             hhHHHHHHHHHhCCC---CCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe
Q 038205          187 IINVQSELVKSLGWA---LTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT  259 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~---~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT  259 (375)
                      -..+-..-+...+..   ......++.. .+.+.++  ...+++-++|+|+++..  .....+...+..-. .+.+|++|
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id~ir-~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~  160 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLEQIR-EIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIA  160 (314)
T ss_pred             ccccchhhhhhccccccccccCcHHHHH-HHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEE
Confidence            000000011111100   0011112222 2222111  23456779999998754  22333322232112 23555555


Q ss_pred             CC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          260 RL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       260 r~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      .+ +.+.... +....+++.+++.++..+.+.+......    .......++..++|.|..+..
T Consensus       161 ~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~----~~~~~~~l~~~a~Gs~~~al~  220 (314)
T PRK07399        161 PSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI----LNINFPELLALAQGSPGAAIA  220 (314)
T ss_pred             CChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc----chhHHHHHHHHcCCCHHHHHH
Confidence            44 4444333 3336889999999999999998753211    111235788999999976544

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.13  E-value=1.3e-05  Score=64.01  Aligned_cols=89  Identities=20%  Similarity=0.107  Sum_probs=47.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.|+|++|+||||+++.+........  ..++++..+........... ...................+..   ...
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~---~~~   75 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALA---LAR   75 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHH---HHH
Confidence            36789999999999999999998877542  23444544433222222111 1111111111122222222222   333


Q ss_pred             CC-cEEEEEeCCCCcc
Q 038205          223 SR-KILVILDDVWKEL  237 (375)
Q Consensus       223 ~k-r~LlVlDdv~~~~  237 (375)
                      .. ..++++|++....
T Consensus        76 ~~~~~viiiDei~~~~   91 (148)
T smart00382       76 KLKPDVLILDEITSLL   91 (148)
T ss_pred             hcCCCEEEEECCcccC
Confidence            33 4899999998653

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.09  E-value=3.8e-05  Score=74.44  Aligned_cols=160  Identities=19%  Similarity=0.196  Sum_probs=87.4

Q ss_pred             CCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC---ccEEEEEEecCCC
Q 038205          122 SSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI---FDKVGIATVSQDP  185 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f~~~~wv~~~~~~  185 (375)
                      ....|.+..+++|.+.+.-             ..++-+.++||+|+|||++|+.+++.......   .....++.+... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~-  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP-  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch-
Confidence            4456788888888776521             23567899999999999999999998753211   112334433321 


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc---------c-----ccccCCCCCC--
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL---------D-----LETIGIPVGD--  248 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~---------~-----~~~l~~~l~~--  248 (375)
                         .++    ...    ...........+..... ...+++++|+||+++...         +     +..+...+..  
T Consensus       261 ---eLl----~ky----vGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~  329 (512)
T TIGR03689       261 ---ELL----NKY----VGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVE  329 (512)
T ss_pred             ---hhc----ccc----cchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccc
Confidence               111    000    00111111111111111 123578999999997421         0     1122222221  


Q ss_pred             CCCCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcC
Q 038205          249 RDNCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ...+..||.||...+....  .   .....+++...+.++..++|+.++.
T Consensus       330 ~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       330 SLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             cCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            1234556666655443221  1   2235689999999999999998875

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.

>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=98.08  E-value=7.3e-06  Score=65.07  Aligned_cols=23  Identities=48%  Similarity=0.637  Sum_probs=21.4

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |.|+|++|+||||+|+.+++...
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            57999999999999999999885

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 ....

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.06  E-value=1.5e-05  Score=79.14  Aligned_cols=51  Identities=20%  Similarity=0.343  Sum_probs=43.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcC-----CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKD-----STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~-----~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |..+..+++.++.+..+..++...     ..+++.|+|++|+||||+++.++....
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            677778899999999999998642     346799999999999999999988764

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

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=98.06  E-value=3.3e-05  Score=74.43  Aligned_cols=189  Identities=18%  Similarity=0.197  Sum_probs=105.8

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.+.....|...+..+. .......|+-|+||||+|+.++....-...       .....++.-...+.|..
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~-------~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG-------PTAEPCGKCISCKEINE   84 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC-------CCCCcchhhhhhHhhhc
Confidence            6667888999999999999987765 456788999999999999998876542110       00000111111112211


Q ss_pred             HhCCCC------CCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCC--cccccccCCCCCCCCCCcEEEEEeCC-hhHHh
Q 038205          197 SLGWAL------TEKDEEDRADRLRLMFS-ESKSRKILVILDDVWK--ELDLETIGIPVGDRDNCCKILLTTRL-QQVCY  266 (375)
Q Consensus       197 ~l~~~~------~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~  266 (375)
                      .-..+.      .....++..+.+.+..- -..++.=++|+|+|+-  ...|..+...+..-......|+.|.+ ..+..
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            100000      01112233222222111 1133555999999974  35666666555443445666665554 33332


Q ss_pred             -hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC
Q 038205          267 -RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG  314 (375)
Q Consensus       267 -~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g  314 (375)
                       ..+....+.+..++.++....+...+..+...-+ ......|++..+|
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e-~~aL~~ia~~a~G  212 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIE-EDALSLIARAAEG  212 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHHHhcCCccC-HHHHHHHHHHcCC
Confidence             2344467899999999888888887753322211 3344445555554

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

Probab=98.06  E-value=1.9e-05  Score=74.71  Aligned_cols=69  Identities=23%  Similarity=0.264  Sum_probs=54.9

Q ss_pred             CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          122 SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      ...+..+..++.+...|...  +.+.++|++|+|||++|+.+++.......|..+.|+.+++..+..+.+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence            34556788888888888653  5778899999999999999999886656788889999998877665553

>TIGR00763 lon ATP-dependent protease La

Probab=98.06  E-value=0.00081  Score=69.62  Aligned_cols=45  Identities=29%  Similarity=0.338  Sum_probs=36.2

Q ss_pred             ccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++..+.|.+++..      ...+++.++||+|+|||++|+.+.+...
T Consensus       322 ~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~  372 (775)
T TIGR00763       322 HYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALN  372 (775)
T ss_pred             cCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            56778888888876531      2346899999999999999999999875

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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=98.05  E-value=1.6e-05  Score=65.63  Aligned_cols=124  Identities=19%  Similarity=0.184  Sum_probs=73.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEE---------------------EecCCCC-------------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIA---------------------TVSQDPS-------------  186 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv---------------------~~~~~~~-------------  186 (375)
                      +...++.++|++|.|||||.+.+|...+...   ..+|+                     .|.|++.             
T Consensus        26 ~~Gef~fl~GpSGAGKSTllkLi~~~e~pt~---G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~  102 (223)
T COG2884          26 PKGEFVFLTGPSGAGKSTLLKLIYGEERPTR---GKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVAL  102 (223)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhhhcCCC---ceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhh
Confidence            3567999999999999999999998876521   11111                     1222221             


Q ss_pred             --------hhHH---HHHHHHHhCCC-------CCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCC----CcccccccCC
Q 038205          187 --------IINV---QSELVKSLGWA-------LTEKDEEDRADRLRLMFSESKSRKILVILDDVW----KELDLETIGI  244 (375)
Q Consensus       187 --------~~~~---~~~i~~~l~~~-------~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~----~~~~~~~l~~  244 (375)
                              ..++   ..+.++.++..       ..-...++..-.+.+   ++-+++-+|+-|+-.    ....|+-+..
T Consensus       103 pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIAR---AiV~~P~vLlADEPTGNLDp~~s~~im~l  179 (223)
T COG2884         103 PLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIAR---AIVNQPAVLLADEPTGNLDPDLSWEIMRL  179 (223)
T ss_pred             hhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHH---HHccCCCeEeecCCCCCCChHHHHHHHHH
Confidence                    1111   12223333321       111233444555666   888899999999654    3334544322


Q ss_pred             CCCCCCCCcEEEEEeCChhHHhhhCC
Q 038205          245 PVGDRDNCCKILLTTRLQQVCYRMGC  270 (375)
Q Consensus       245 ~l~~~~~gs~IivTTr~~~v~~~~~~  270 (375)
                      .-.-+..|..|+++|++.++...+..
T Consensus       180 feeinr~GtTVl~ATHd~~lv~~~~~  205 (223)
T COG2884         180 FEEINRLGTTVLMATHDLELVNRMRH  205 (223)
T ss_pred             HHHHhhcCcEEEEEeccHHHHHhccC
Confidence            22224568999999999988776643

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.04  E-value=0.00024  Score=61.57  Aligned_cols=188  Identities=18%  Similarity=0.219  Sum_probs=105.5

Q ss_pred             HHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec-CCCChhHHHHHHHHHhCCCCCCCCHH
Q 038205          130 ACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS-QDPSIINVQSELVKSLGWALTEKDEE  208 (375)
Q Consensus       130 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~  208 (375)
                      .+..+...+ .++.+++.++|.-|+|||++.+.+.......    .++-+.++ +..+...+...++..+... ......
T Consensus        39 ~l~~l~~~i-~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d----~~~~v~i~~~~~s~~~~~~ai~~~l~~~-p~~~~~  112 (269)
T COG3267          39 ALLMLHAAI-ADGQGILAVTGEVGSGKTVLRRALLASLNED----QVAVVVIDKPTLSDATLLEAIVADLESQ-PKVNVN  112 (269)
T ss_pred             HHHHHHHHH-hcCCceEEEEecCCCchhHHHHHHHHhcCCC----ceEEEEecCcchhHHHHHHHHHHHhccC-ccchhH
Confidence            334443333 3455799999999999999999555544422    22224444 3456777888888887652 222222


Q ss_pred             HHHHHHHHHhh--hcCCCc-EEEEEeCCCCc--ccccccCCC--C-CCCCCCcEEEEEeCCh-------hHHhhhC-CCC
Q 038205          209 DRADRLRLMFS--ESKSRK-ILVILDDVWKE--LDLETIGIP--V-GDRDNCCKILLTTRLQ-------QVCYRMG-CDP  272 (375)
Q Consensus       209 ~~~~~l~~~~~--~l~~kr-~LlVlDdv~~~--~~~~~l~~~--l-~~~~~gs~IivTTr~~-------~v~~~~~-~~~  272 (375)
                      .....+...+.  .-+++| ..+++||....  ..++.+...  + .....--+|+..-..+       .+..... ...
T Consensus       113 ~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~  192 (269)
T COG3267         113 AVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRID  192 (269)
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEE
Confidence            22222222111  224566 89999998754  233332111  1 1111112334333211       0111111 113


Q ss_pred             c-ccCCCCChHHHHHHHHHHcCCCCC--CCCchHHHHHHHHHcCCchhHHHHHH
Q 038205          273 R-IKLDALDQAEGLDLLRKHAGIDVA--DKTMTDVSKRVADECKGLPLAIKAVG  323 (375)
Q Consensus       273 ~-~~l~~L~~~e~~~Lf~~~~~~~~~--~~~~~~~~~~i~~~~~glPlai~~i~  323 (375)
                      . |.+.|++.++...+++.+......  +--.......|.....|.|.+|+.+.
T Consensus       193 ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~  246 (269)
T COG3267         193 IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLA  246 (269)
T ss_pred             EEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHH
Confidence            3 899999999999999887753221  22225667889999999999998765

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.04  E-value=8.5e-05  Score=72.00  Aligned_cols=175  Identities=14%  Similarity=0.104  Sum_probs=91.0

Q ss_pred             CCCccchHHHHHHHHHHH---h-------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHH
Q 038205          121 FSSFETTESACNQIIEAL---K-------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINV  190 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l---~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  190 (375)
                      +....|.+...+.+....   .       -..++-|.++||+|+|||.+|+.+.+.....  |   +-+..+.       
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~--~---~~l~~~~-------  294 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP--L---LRLDVGK-------  294 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEEhHH-------
Confidence            445567666555554321   1       1235678999999999999999999976532  1   1111110       


Q ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc--------------ccccCCCCCCCCCCcEEE
Q 038205          191 QSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD--------------LETIGIPVGDRDNCCKIL  256 (375)
Q Consensus       191 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~--------------~~~l~~~l~~~~~gs~Ii  256 (375)
                         +..    .....+.......+..   .-...+++|++|+++....              +..+...+.....+.-||
T Consensus       295 ---l~~----~~vGese~~l~~~f~~---A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vI  364 (489)
T CHL00195        295 ---LFG----GIVGESESRMRQMIRI---AEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVV  364 (489)
T ss_pred             ---hcc----cccChHHHHHHHHHHH---HHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEE
Confidence               110    0111112222222222   3345789999999864210              001111111223344566


Q ss_pred             EEeCChhHHh-h----hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          257 LTTRLQQVCY-R----MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       257 vTTr~~~v~~-~----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .||.+....+ .    ...+..+.++.-+.++-.++|+.+................+++.+.|+--
T Consensus       365 aTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSG  430 (489)
T CHL00195        365 ATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSG  430 (489)
T ss_pred             EecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCH
Confidence            6776543211 1    12336778888899999999998875321111001224566777766644

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.04  E-value=0.0003  Score=64.44  Aligned_cols=176  Identities=14%  Similarity=0.127  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC----------------CccEEEEEEe-cCCCChhH
Q 038205          128 ESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN----------------IFDKVGIATV-SQDPSIIN  189 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----------------~f~~~~wv~~-~~~~~~~~  189 (375)
                      +...+.+...+..+. +..+.++|+.|+||+++|..+.+..--..                ..+...|+.. +...+.  
T Consensus        10 ~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~--   87 (319)
T PRK08769         10 QRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGD--   87 (319)
T ss_pred             HHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccc--
Confidence            445667777777665 45689999999999999998876553111                1111222210 000000  


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHH-hhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHH
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLM-FSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVC  265 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~-~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~  265 (375)
                                ........++..+....+ .....+++-++|+|+++..  ..-..+...+..-..++.+|++|.+ ..+.
T Consensus        88 ----------k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lL  157 (319)
T PRK08769         88 ----------KLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLP  157 (319)
T ss_pred             ----------cccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCc
Confidence                      000001112222221111 0122346679999998754  2222222223222345667777664 4444


Q ss_pred             hhhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          266 YRMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       266 ~~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      ..+. .-..+.+.+++.+++...+... +.   +   ...+..++..++|.|+....+
T Consensus       158 pTIrSRCq~i~~~~~~~~~~~~~L~~~-~~---~---~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        158 ATIRSRCQRLEFKLPPAHEALAWLLAQ-GV---S---ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             hHHHhhheEeeCCCcCHHHHHHHHHHc-CC---C---hHHHHHHHHHcCCCHHHHHHH
Confidence            3333 3367889999999999888753 21   1   233567899999999866543

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.03  E-value=0.00039  Score=63.82  Aligned_cols=178  Identities=10%  Similarity=0.085  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCc---cE-----EEEEEecCCCChhHHHHHHHHHhC
Q 038205          129 SACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF---DK-----VGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       129 ~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f---~~-----~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      .....|...+..+. .+.+.+.|+.|+||+++|..+....-=....   .|     .-++.....+|+..+..       
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p-------   81 (325)
T PRK06871          9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEP-------   81 (325)
T ss_pred             HHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcc-------
Confidence            44566777776655 5678899999999999999987765311100   00     00000111111110000       


Q ss_pred             CCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CCCCcc
Q 038205          200 WALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GCDPRI  274 (375)
Q Consensus       200 ~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~~~~~  274 (375)
                      ........++..+....+. ....+++-++|+|+++..  .....+...+..-..++.+|++|.+ ..+.... +.-..+
T Consensus        82 ~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~  161 (325)
T PRK06871         82 IDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTW  161 (325)
T ss_pred             ccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEE
Confidence            0000112233332222211 133456678889998754  2333333333333345677777665 3444333 333678


Q ss_pred             cCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          275 KLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       275 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+.+++.++..+.+.......      ...+...+..++|.|+.+
T Consensus       162 ~~~~~~~~~~~~~L~~~~~~~------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        162 LIHPPEEQQALDWLQAQSSAE------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             eCCCCCHHHHHHHHHHHhccC------hHHHHHHHHHcCCCHHHH
Confidence            999999999998888764211      123556778899999633

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.02  E-value=8.7e-05  Score=71.40  Aligned_cols=151  Identities=15%  Similarity=0.094  Sum_probs=87.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      ..+.|+|++|+|||+|++.+++.....  ...+++++      ...+...+...+...    .    ...+..   .. .
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~------~~~f~~~~~~~l~~~----~----~~~f~~---~~-~  201 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVR------SELFTEHLVSAIRSG----E----MQRFRQ---FY-R  201 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEee------HHHHHHHHHHHHhcc----h----HHHHHH---Hc-c
Confidence            468899999999999999999987643  22344443      223344444444210    0    112222   22 2


Q ss_pred             CcEEEEEeCCCCccc----ccccCCCCCC-CCCCcEEEEEeCCh---------hHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          224 RKILVILDDVWKELD----LETIGIPVGD-RDNCCKILLTTRLQ---------QVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       224 kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~gs~IivTTr~~---------~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                      +.-+|++||+.....    .+.+...+.. ...|..||+||...         .+..++.....+.+.+++.++...++.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~  281 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLE  281 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHH
Confidence            445889999865321    1112111111 12355788887541         223334445688999999999999999


Q ss_pred             HHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          290 KHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      +.+.... ..--.++..-|+..+.|.
T Consensus       282 ~k~~~~~-~~l~~evl~~la~~~~~d  306 (445)
T PRK12422        282 RKAEALS-IRIEETALDFLIEALSSN  306 (445)
T ss_pred             HHHHHcC-CCCCHHHHHHHHHhcCCC
Confidence            8775322 111245566677666644

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.00  E-value=0.00011  Score=63.70  Aligned_cols=54  Identities=24%  Similarity=0.272  Sum_probs=41.7

Q ss_pred             CCCCCCccchHHHHHHHHHHH----hcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          118 PRFFSSFETTESACNQIIEAL----KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      |..+...+|.+...+.|.+-.    ......-+.+||..|+|||++++.+.+.....+
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G   80 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG   80 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC
Confidence            344566888888888877653    333456788899999999999999999887654

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.99  E-value=4.6e-05  Score=71.32  Aligned_cols=132  Identities=20%  Similarity=0.237  Sum_probs=82.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.|+|+.|+|||.|++.+.+.......-..++.+  +    .......++..+..        ...+.+++   .. 
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~--~----se~f~~~~v~a~~~--------~~~~~Fk~---~y-  174 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYL--T----SEDFTNDFVKALRD--------NEMEKFKE---KY-  174 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEec--c----HHHHHHHHHHHHHh--------hhHHHHHH---hh-
Confidence            5789999999999999999999998754322234433  2    22333344333321        12223333   33 


Q ss_pred             CCcEEEEEeCCCCcc---ccc-ccCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcccCCCCChHHHHHHH
Q 038205          223 SRKILVILDDVWKEL---DLE-TIGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRIKLDALDQAEGLDLL  288 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~---~~~-~l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf  288 (375)
                       .--++++||++-..   .|+ .+...|.. ...|..||+|++.         +.+.+++.....+.+.+++.+....++
T Consensus       175 -~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL  253 (408)
T COG0593         175 -SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAIL  253 (408)
T ss_pred             -ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHH
Confidence             33489999997532   222 22222211 2234489999863         455666677788999999999999999


Q ss_pred             HHHcC
Q 038205          289 RKHAG  293 (375)
Q Consensus       289 ~~~~~  293 (375)
                      .+.+.
T Consensus       254 ~kka~  258 (408)
T COG0593         254 RKKAE  258 (408)
T ss_pred             HHHHH
Confidence            98765

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.99  E-value=0.00029  Score=65.95  Aligned_cols=193  Identities=13%  Similarity=0.167  Sum_probs=112.9

Q ss_pred             hHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCccEEEEEEecC---CCChhHHHHHHHHHhCC--
Q 038205          127 TESACNQIIEALKKDSTKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFDKVGIATVSQ---DPSIINVQSELVKSLGW--  200 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~~~l~~--  200 (375)
                      |.+.+++|..||......+|.|.||-|+||+.|+ .++..+.+.      +..+...+   ..+-..++..++.++|.  
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~qvGY~P   74 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLASQVGYFP   74 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHHhcCCCc
Confidence            5677899999998888889999999999999999 666554331      12221111   11222233333333321  


Q ss_pred             ----------------------C--CCCCCHHHHHHHHH-------H-------------------HhhhcCCCcEEEEE
Q 038205          201 ----------------------A--LTEKDEEDRADRLR-------L-------------------MFSESKSRKILVIL  230 (375)
Q Consensus       201 ----------------------~--~~~~~~~~~~~~l~-------~-------------------~~~~l~~kr~LlVl  230 (375)
                                            .  ..+....++...+.       .                   +++.-...+-++|+
T Consensus        75 vFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVI  154 (431)
T PF10443_consen   75 VFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVI  154 (431)
T ss_pred             chHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEE
Confidence                                  0  11111122221111       1                   01111123669999


Q ss_pred             eCCCCc-----------ccccccCCCCCCCCCCcEEEEEeCChhHHh----hhC--CCCcccCCCCChHHHHHHHHHHcC
Q 038205          231 DDVWKE-----------LDLETIGIPVGDRDNCCKILLTTRLQQVCY----RMG--CDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       231 Ddv~~~-----------~~~~~l~~~l~~~~~gs~IivTTr~~~v~~----~~~--~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      |+....           .+|...   +. .++-.+||++|-+.....    .+.  ..+.+.|...+++.|..+...++.
T Consensus       155 dnF~~k~~~~~~iy~~laeWAa~---Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~  230 (431)
T PF10443_consen  155 DNFLHKAEENDFIYDKLAEWAAS---LV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLD  230 (431)
T ss_pred             cchhccCcccchHHHHHHHHHHH---HH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhc
Confidence            998643           123321   21 123458888887644433    332  336789999999999999999886


Q ss_pred             CCCCC-------------------CCchHHHHHHHHHcCCchhHHHHHHHHhcCC
Q 038205          294 IDVAD-------------------KTMTDVSKRVADECKGLPLAIKAVGSALRLR  329 (375)
Q Consensus       294 ~~~~~-------------------~~~~~~~~~i~~~~~glPlai~~i~~~L~~~  329 (375)
                      .....                   .....-....++.+||=-.=+..+++.++.-
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksG  285 (431)
T PF10443_consen  231 EDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSG  285 (431)
T ss_pred             ccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcC
Confidence            32100                   1234455778888999988888888888754

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.98  E-value=7.6e-05  Score=69.05  Aligned_cols=104  Identities=8%  Similarity=0.139  Sum_probs=67.1

Q ss_pred             HHHHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCC-CChhHHHHHHHHHhCCCCCCCCH
Q 038205          131 CNQIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQD-PSIINVQSELVKSLGWALTEKDE  207 (375)
Q Consensus       131 ~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~  207 (375)
                      ..++++.+.. +..+.+.|+|++|+|||||++.+.+..... +-+. ++|+.+.+. .++.++.+.+...+.....+...
T Consensus       120 ~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~  198 (380)
T PRK12608        120 SMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPP  198 (380)
T ss_pred             hHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCH
Confidence            3446666543 556788999999999999999999887643 2233 467677654 47778888887766544332222


Q ss_pred             HH---HHHHHHHHhhhc--CCCcEEEEEeCCCC
Q 038205          208 ED---RADRLRLMFSES--KSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~---~~~~l~~~~~~l--~~kr~LlVlDdv~~  235 (375)
                      ..   ....+.....++  .+++++||+|++..
T Consensus       199 ~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        199 DEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            21   111222222222  57999999999853

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.98  E-value=0.00097  Score=61.11  Aligned_cols=168  Identities=14%  Similarity=0.111  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC------------------CccEEEEEEecCCCChhH
Q 038205          129 SACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN------------------IFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       129 ~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~f~~~~wv~~~~~~~~~~  189 (375)
                      ...+++...+..+. .+.+.+.|+.|+||+++|..+....-=.+                  ..+...|+.-...     
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~-----   84 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKE-----   84 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcC-----
Confidence            45566777676655 56789999999999999998876542110                  1111222211100     


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHH-hhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHH
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLM-FSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVC  265 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~-~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~  265 (375)
                                  ......++..+..... .....+++-++|+|+++..  .....+...+..-.+++.+|++|.+ ..+.
T Consensus        85 ------------~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lL  152 (319)
T PRK06090         85 ------------GKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLL  152 (319)
T ss_pred             ------------CCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhCh
Confidence                        0011122222211111 0122345668899998754  3334443334333345677766665 4444


Q ss_pred             hhhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          266 YRMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       266 ~~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      .... .-..+.+.+++.+++.+.+.... .   +     ....++..++|.|+....+
T Consensus       153 pTI~SRCq~~~~~~~~~~~~~~~L~~~~-~---~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        153 PTIVSRCQQWVVTPPSTAQAMQWLKGQG-I---T-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             HHHHhcceeEeCCCCCHHHHHHHHHHcC-C---c-----hHHHHHHHcCCCHHHHHHH
Confidence            4433 33678999999999999887531 1   1     1356788999999977554

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

Probab=97.97  E-value=2.9e-05  Score=79.14  Aligned_cols=157  Identities=15%  Similarity=0.181  Sum_probs=90.0

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHH
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      .+.+.+||+.++.+++..|......-+.++|++|+|||++|+.++.......    ..++.+|..     ++.    .++
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~----~ll  254 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIG----SLL  254 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHH----HHh
Confidence            3467899999999999999776556667899999999999999988754321    123334421     111    111


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCc--------cccc--ccCCCCCCCCCCcEEEEEeCChhH
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKE--------LDLE--TIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~--------~~~~--~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                      .  +..    -..+....+..++..+ ..++.+|++|+++..        .+.+  .+..++.. ....++|-+|..++.
T Consensus       255 a--G~~----~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~-~g~i~vIgATt~~E~  327 (758)
T PRK11034        255 A--GTK----YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEF  327 (758)
T ss_pred             c--ccc----hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh-CCCeEEEecCChHHH
Confidence            0  000    0112222333322233 346789999998632        1111  11122211 123455655554433


Q ss_pred             Hh-------hhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          265 CY-------RMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       265 ~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ..       .......+.++.++.++...++....
T Consensus       328 ~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        328 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            11       11233578999999999999998643

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

Probab=97.95  E-value=6.1e-05  Score=68.64  Aligned_cols=198  Identities=13%  Similarity=0.135  Sum_probs=115.6

Q ss_pred             CCccchHHHHHHHHHHHhcCC---CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh
Q 038205          122 SSFETTESACNQIIEALKKDS---TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL  198 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~---~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  198 (375)
                      ..+..|+..+..+..++.+..   +..|-|+|-+|.|||.+.+.+.+....     ..+|++.-..++...++..|+..+
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHh
Confidence            346689999999999987653   345689999999999999999998732     357999999999999999999998


Q ss_pred             CC-CCCCCCH----HHHHHHHHHHhh--hc--CCCcEEEEEeCCCCcccccccCCC----C--CCCCCCcEEEEEeCC--
Q 038205          199 GW-ALTEKDE----EDRADRLRLMFS--ES--KSRKILVILDDVWKELDLETIGIP----V--GDRDNCCKILLTTRL--  261 (375)
Q Consensus       199 ~~-~~~~~~~----~~~~~~l~~~~~--~l--~~kr~LlVlDdv~~~~~~~~l~~~----l--~~~~~gs~IivTTr~--  261 (375)
                      .. +.+....    +...+.+..+.+  ..  .++.++||||+++...+.+.+..+    +  ....+ ..+|+++..  
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~-~i~iils~~~~  159 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEP-TIVIILSAPSC  159 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCC-ceEEEEecccc
Confidence            52 2111111    122222222222  22  246899999999866544432111    0  00122 233444332  


Q ss_pred             hhH-HhhhCCC--CcccCCCCChHHHHHHHHHHcCCCCC----CCCchHHHHHHHHHcCCchhHHHHHHHHh
Q 038205          262 QQV-CYRMGCD--PRIKLDALDQAEGLDLLRKHAGIDVA----DKTMTDVSKRVADECKGLPLAIKAVGSAL  326 (375)
Q Consensus       262 ~~v-~~~~~~~--~~~~l~~L~~~e~~~Lf~~~~~~~~~----~~~~~~~~~~i~~~~~glPlai~~i~~~L  326 (375)
                      +.. ...++..  .++.+...+.+|...++.+.-.+...    ..-+.-+..-....|+ -|-.+..+.+..
T Consensus       160 e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~  230 (438)
T KOG2543|consen  160 EKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLA  230 (438)
T ss_pred             HHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHH
Confidence            221 1113333  34667788888888888754321110    0001112233445565 566666555544

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

Probab=97.95  E-value=0.00029  Score=63.90  Aligned_cols=193  Identities=21%  Similarity=0.237  Sum_probs=110.9

Q ss_pred             ccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHH
Q 038205          124 FETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINV  190 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  190 (375)
                      ..|-++.+++|.+...             -+.++=|.+|||+|.|||-||++|++.....  |-.     +..+      
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At--FIr-----vvgS------  219 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT--FIR-----VVGS------  219 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce--EEE-----eccH------
Confidence            4467777777777642             1347788999999999999999999987743  432     2211      


Q ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc----------------cccccCCCCCCC--CC
Q 038205          191 QSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL----------------DLETIGIPVGDR--DN  251 (375)
Q Consensus       191 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  251 (375)
                        ++.+..-        .+....+++++. +-...+++|.+|+++...                .+-++...+..+  ..
T Consensus       220 --ElVqKYi--------GEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         220 --ELVQKYI--------GEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             --HHHHHHh--------ccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence              2222110        112233444443 345589999999886320                122222222221  34


Q ss_pred             CcEEEEEeCChhHHhh-----hCCCCcccCCCCChHHHHHHHHHHcCCCC--CCCCchHHHHHHHHHcCCchh----HHH
Q 038205          252 CCKILLTTRLQQVCYR-----MGCDPRIKLDALDQAEGLDLLRKHAGIDV--ADKTMTDVSKRVADECKGLPL----AIK  320 (375)
Q Consensus       252 gs~IivTTr~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~--~~~~~~~~~~~i~~~~~glPl----ai~  320 (375)
                      ..|||..|...++...     -.-+..+++..-+.+.-.++|+-+...-.  ...++    +.+++.|.|.--    |+.
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlkaic  365 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKAIC  365 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHHHH
Confidence            5789988776554322     22336788886666666777776664211  22333    456677777654    445


Q ss_pred             HHHHHhc--C---C-CHHHHHHHHHHhhh
Q 038205          321 AVGSALR--L---R-TADEWNVALDKLQN  343 (375)
Q Consensus       321 ~i~~~L~--~---~-~~~~w~~~l~~l~~  343 (375)
                      +=|+++.  .   . +.+.+.++.++...
T Consensus       366 tEAGm~AiR~~R~~Vt~~DF~~Av~KV~~  394 (406)
T COG1222         366 TEAGMFAIRERRDEVTMEDFLKAVEKVVK  394 (406)
T ss_pred             HHHhHHHHHhccCeecHHHHHHHHHHHHh
Confidence            5566653  1   1 56667766666544

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=0.00025  Score=65.74  Aligned_cols=149  Identities=12%  Similarity=0.100  Sum_probs=84.3

Q ss_pred             ccc-hHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCC-------------------ccEEEEEEec
Q 038205          124 FET-TESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNI-------------------FDKVGIATVS  182 (375)
Q Consensus       124 ~~g-r~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~~  182 (375)
                      .+| .+..++.|...+..++ .+...++|+.|+||||+|+.+.+..--.+.                   ++...++...
T Consensus         7 i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~~   86 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAPD   86 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEeccc
Confidence            345 6777788888887765 456799999999999999998776532110                   1111111100


Q ss_pred             CCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEe
Q 038205          183 QDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTT  259 (375)
Q Consensus       183 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTT  259 (375)
                      .                   .....++..+.+..+. ....+++-++|+|+++..  .....+...+..-..++.+|++|
T Consensus        87 ~-------------------~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t  147 (329)
T PRK08058         87 G-------------------QSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLT  147 (329)
T ss_pred             c-------------------ccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEe
Confidence            0                   0111222222222110 023455668999998654  22333433443333456777777


Q ss_pred             CC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHH
Q 038205          260 RL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKH  291 (375)
Q Consensus       260 r~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~  291 (375)
                      .+ ..+.... +....+++.+++.++....+...
T Consensus       148 ~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        148 ENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            65 3333322 33367899999999998888653

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.92  E-value=0.00026  Score=68.26  Aligned_cols=171  Identities=19%  Similarity=0.221  Sum_probs=95.2

Q ss_pred             CCCccchHHHHHHHHHHHh---c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          121 FSSFETTESACNQIIEALK---K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      +..+.|.+..+.+|.+.+.   .         ..++-|.++||+|+|||.||+.+++...+.       ++.++..    
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-------f~~isAp----  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-------FLSISAP----  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-------eEeecch----
Confidence            4556788888888887752   1         136778999999999999999999998854       3333322    


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCCC---C
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVGD---R  249 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~---~  249 (375)
                          +|+..+    ...+.+.+.+.+.+   +-..-++++++|+++-..                ++-.....+..   .
T Consensus       258 ----eivSGv----SGESEkkiRelF~~---A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~  326 (802)
T KOG0733|consen  258 ----EIVSGV----SGESEKKIRELFDQ---AKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTK  326 (802)
T ss_pred             ----hhhccc----CcccHHHHHHHHHH---HhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccC
Confidence                222222    22333444444444   666799999999986420                11111111111   1


Q ss_pred             CCCcEEEE-EeCChhHHhh---hC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          250 DNCCKILL-TTRLQQVCYR---MG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       250 ~~gs~Iiv-TTr~~~v~~~---~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      +.+.-||= |+|...+-..   .+ ..+.|.+.--++..-.++++..+..-..+..+  ..++|++..-|.
T Consensus       327 g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~--d~~qlA~lTPGf  395 (802)
T KOG0733|consen  327 GDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDF--DFKQLAKLTPGF  395 (802)
T ss_pred             CCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCc--CHHHHHhcCCCc
Confidence            22333333 4554333221   22 23567777777777777777666422212211  134556655554

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

Probab=97.92  E-value=0.00061  Score=67.13  Aligned_cols=155  Identities=18%  Similarity=0.233  Sum_probs=85.7

Q ss_pred             ccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          124 FETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      -.|-++..+.|++.|.-      -..++++++||+|+|||+|++.++.....  .|-..   +++.-.+..++.-.--  
T Consensus       325 HYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~R--kfvR~---sLGGvrDEAEIRGHRR--  397 (782)
T COG0466         325 HYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGR--KFVRI---SLGGVRDEAEIRGHRR--  397 (782)
T ss_pred             ccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCC--CEEEE---ecCccccHHHhccccc--
Confidence            45788899999998832      24689999999999999999999998763  34222   2221111111110000  


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccccCCC-----CCCC-----CCCcEEE-E
Q 038205          198 LGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLETIGIP-----VGDR-----DNCCKIL-L  257 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~l~~~-----l~~~-----~~gs~Ii-v  257 (375)
                         ..-..-+....+.+.    ..+.+.-+++||+++...         .+-++..+     |.++     --=|.|+ |
T Consensus       398 ---TYIGamPGrIiQ~mk----ka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFi  470 (782)
T COG0466         398 ---TYIGAMPGKIIQGMK----KAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFI  470 (782)
T ss_pred             ---cccccCChHHHHHHH----HhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEE
Confidence               000111122222222    334467789999886421         11111111     1100     0113333 4


Q ss_pred             EeCC-hh-H-HhhhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          258 TTRL-QQ-V-CYRMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       258 TTr~-~~-v-~~~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ||-| -+ + ++.++...++++.+.+++|=.++-++++
T Consensus       471 aTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         471 ATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             eecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            4443 22 2 3445556789999999999999888876

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.91  E-value=0.00075  Score=62.50  Aligned_cols=179  Identities=11%  Similarity=0.072  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhh---cCCccE-----EEEEEecCCCChhHHHHHHHHHhC
Q 038205          129 SACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQ---NNIFDK-----VGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       129 ~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~f~~-----~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      ...+++...+..+. .+.+.+.|+.|+||+++|..+....-=   ...-.|     ..++.....+|+..+.-      .
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p------~   82 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTP------E   82 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEec------c
Confidence            45667777776655 567889999999999999988766521   000000     00011111111110000      0


Q ss_pred             CCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CCCCcc
Q 038205          200 WALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GCDPRI  274 (375)
Q Consensus       200 ~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~~~~~  274 (375)
                      ........++..+....+. ....+++-++|+|+++..  ..-..+...+..-..++.+|++|.+ ..+.... +.-..+
T Consensus        83 ~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~  162 (334)
T PRK07993         83 KGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLH  162 (334)
T ss_pred             cccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccc
Confidence            0000112233333222211 133456779999988754  2333333333332345666666665 4454443 333578


Q ss_pred             cCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          275 KLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       275 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+.+++.+++.+.+....+.   +   .+.+..++..++|.|...
T Consensus       163 ~~~~~~~~~~~~~L~~~~~~---~---~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        163 YLAPPPEQYALTWLSREVTM---S---QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             cCCCCCHHHHHHHHHHccCC---C---HHHHHHHHHHcCCCHHHH
Confidence            99999999999888654321   1   234677889999999744

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.91  E-value=4.1e-05  Score=66.99  Aligned_cols=120  Identities=17%  Similarity=0.224  Sum_probs=68.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----C-------c---cEEEEEEecCCCC------h-------------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----I-------F---DKVGIATVSQDPS------I-------------  187 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~-------f---~~~~wv~~~~~~~------~-------------  187 (375)
                      ....+++|+||+|.|||||.+.+..-.+...    .       +   ..+.||.-...++      +             
T Consensus        28 ~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g  107 (254)
T COG1121          28 EKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKG  107 (254)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccc
Confidence            3457999999999999999999988554211    0       1   2344443211111      1             


Q ss_pred             ---------hHHHHHHHHHhCC------CCCCCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCc------ccccccCCC
Q 038205          188 ---------INVQSELVKSLGW------ALTEKDE-EDRADRLRLMFSESKSRKILVILDDVWKE------LDLETIGIP  245 (375)
Q Consensus       188 ---------~~~~~~i~~~l~~------~~~~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~------~~~~~l~~~  245 (375)
                               .....+.+++++.      .....+. +...-.+.+   +|..++=||+||+.-..      ..+-.+...
T Consensus       108 ~~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lAR---AL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~  184 (254)
T COG1121         108 WFRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLAR---ALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKE  184 (254)
T ss_pred             ccccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHH---HhccCCCEEEecCCcccCCHHHHHHHHHHHHH
Confidence                     1233344444432      1222222 223334455   88889999999975432      233333333


Q ss_pred             CCCCCCCcEEEEEeCChhHH
Q 038205          246 VGDRDNCCKILLTTRLQQVC  265 (375)
Q Consensus       246 l~~~~~gs~IivTTr~~~v~  265 (375)
                      +..  .|..|+++|++-+..
T Consensus       185 l~~--eg~tIl~vtHDL~~v  202 (254)
T COG1121         185 LRQ--EGKTVLMVTHDLGLV  202 (254)
T ss_pred             HHH--CCCEEEEEeCCcHHh
Confidence            332  288999999986543

>PRK10536 hypothetical protein; Provisional

Probab=97.90  E-value=6.5e-05  Score=65.92  Aligned_cols=133  Identities=15%  Similarity=0.162  Sum_probs=73.2

Q ss_pred             CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec----C-----CCChhH---
Q 038205          122 SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS----Q-----DPSIIN---  189 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~----~-----~~~~~~---  189 (375)
                      ....++......++.++.+.  .++.+.|+.|+|||+||..+..+.-..+.|..++...-.    .     +.+..+   
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~~  132 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKFA  132 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHHHH
Confidence            44566788888888888664  599999999999999999988753212335544333111    0     012211   


Q ss_pred             -HHHHHHHHhCCCCCCCCHHHHHHHHH------H--HhhhcCCCcE---EEEEeCCCCcc--cccccCCCCCCCCCCcEE
Q 038205          190 -VQSELVKSLGWALTEKDEEDRADRLR------L--MFSESKSRKI---LVILDDVWKEL--DLETIGIPVGDRDNCCKI  255 (375)
Q Consensus       190 -~~~~i~~~l~~~~~~~~~~~~~~~l~------~--~~~~l~~kr~---LlVlDdv~~~~--~~~~l~~~l~~~~~gs~I  255 (375)
                       .+.-+...+..-...   ......+.      +  -+.++++..+   ++|+|++.+..  +...+..   ..+.+|++
T Consensus       133 p~~~pi~D~L~~~~~~---~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~lt---R~g~~sk~  206 (262)
T PRK10536        133 PYFRPVYDVLVRRLGA---SFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLT---RLGENVTV  206 (262)
T ss_pred             HHHHHHHHHHHHHhCh---HHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHh---hcCCCCEE
Confidence             222222222111111   11111110      0  1235666554   99999998753  3444433   34577999


Q ss_pred             EEEeCCh
Q 038205          256 LLTTRLQ  262 (375)
Q Consensus       256 ivTTr~~  262 (375)
                      |+|--..
T Consensus       207 v~~GD~~  213 (262)
T PRK10536        207 IVNGDIT  213 (262)
T ss_pred             EEeCChh
Confidence            9986543

>PRK08181 transposase; Validated

Probab=97.90  E-value=8.6e-05  Score=66.40  Aligned_cols=78  Identities=26%  Similarity=0.202  Sum_probs=45.4

Q ss_pred             HHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHH
Q 038205          136 EALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLR  215 (375)
Q Consensus       136 ~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~  215 (375)
                      +|+.  ...-+.++|++|+|||.||..+.+.....  ...+.+++      ..+++..+....    ...+...   .+.
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~------~~~L~~~l~~a~----~~~~~~~---~l~  163 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTR------TTDLVQKLQVAR----RELQLES---AIA  163 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeee------HHHHHHHHHHHH----hCCcHHH---HHH
Confidence            4554  33568999999999999999999876543  22344553      234444443321    1111111   111


Q ss_pred             HHhhhcCCCcEEEEEeCCCC
Q 038205          216 LMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~  235 (375)
                          .+ .+.-||||||+..
T Consensus       164 ----~l-~~~dLLIIDDlg~  178 (269)
T PRK08181        164 ----KL-DKFDLLILDDLAY  178 (269)
T ss_pred             ----HH-hcCCEEEEecccc
Confidence                22 1344999999964

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.88  E-value=0.00012  Score=60.58  Aligned_cols=135  Identities=18%  Similarity=0.169  Sum_probs=72.0

Q ss_pred             chHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC------------------CccEEEEEEecCC--
Q 038205          126 TTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN------------------IFDKVGIATVSQD--  184 (375)
Q Consensus       126 gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~f~~~~wv~~~~~--  184 (375)
                      |.++..+.|.+.+..+. +..+.++|+.|+||+++|..+.+..--..                  ......|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            45677788888887776 45689999999999999999877653221                  1222334432221  


Q ss_pred             -CChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC
Q 038205          185 -PSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       185 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~  261 (375)
                       ... +-.+++...+...                  ...+++=++|+|+++..  .....+...+..-..++.+|++|++
T Consensus        81 ~i~i-~~ir~i~~~~~~~------------------~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~  141 (162)
T PF13177_consen   81 SIKI-DQIREIIEFLSLS------------------PSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNN  141 (162)
T ss_dssp             SBSH-HHHHHHHHHCTSS-------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-
T ss_pred             hhhH-HHHHHHHHHHHHH------------------HhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECC
Confidence             111 1112333322111                  22346679999999764  3444444444333456888888886


Q ss_pred             hh-HHhh-hCCCCcccCCCC
Q 038205          262 QQ-VCYR-MGCDPRIKLDAL  279 (375)
Q Consensus       262 ~~-v~~~-~~~~~~~~l~~L  279 (375)
                      .. +... .+.-..+.+.++
T Consensus       142 ~~~il~TI~SRc~~i~~~~l  161 (162)
T PF13177_consen  142 PSKILPTIRSRCQVIRFRPL  161 (162)
T ss_dssp             GGGS-HHHHTTSEEEEE---
T ss_pred             hHHChHHHHhhceEEecCCC
Confidence            43 3332 222244555554

...

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

Probab=97.88  E-value=0.00032  Score=72.09  Aligned_cols=155  Identities=14%  Similarity=0.143  Sum_probs=84.4

Q ss_pred             ccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          124 FETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      .+|.++..+.|++++..      ....++.++|++|+||||+++.++.....  .|-.   +..+...+...+...-...
T Consensus       324 ~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~--~~~~---i~~~~~~d~~~i~g~~~~~  398 (784)
T PRK10787        324 HYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGR--KYVR---MALGGVRDEAEIRGHRRTY  398 (784)
T ss_pred             ccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCC--CEEE---EEcCCCCCHHHhccchhcc
Confidence            67889999999988742      24678999999999999999999987652  2322   2222222221111111000


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc------ccccCCCCC---------------CCCCCcEEE
Q 038205          198 LGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD------LETIGIPVG---------------DRDNCCKIL  256 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~------~~~l~~~l~---------------~~~~gs~Ii  256 (375)
                      .     ..........+..   .. ...-+++||+++....      ...+...+.               ..-....+|
T Consensus       399 ~-----g~~~G~~~~~l~~---~~-~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i  469 (784)
T PRK10787        399 I-----GSMPGKLIQKMAK---VG-VKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFV  469 (784)
T ss_pred             C-----CCCCcHHHHHHHh---cC-CCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEE
Confidence            1     1111222222222   22 2344788999864311      111111111               111334455


Q ss_pred             EEeCChhHHhh-hCCCCcccCCCCChHHHHHHHHHHc
Q 038205          257 LTTRLQQVCYR-MGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       257 vTTr~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .|+.+..+... .+...++++.+++.++-.++.+++.
T Consensus       470 ~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        470 ATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            56654433222 2333678999999999999888766

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.87  E-value=0.00079  Score=65.15  Aligned_cols=88  Identities=22%  Similarity=0.232  Sum_probs=47.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCCCCC-CCHHHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWALTE-KDEEDRADRLRLMFS  219 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~  219 (375)
                      ...+|+|+|++|+||||++..+............+..++... .......+......++..... .+.......+.    
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~----  424 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLE----  424 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHH----
Confidence            357999999999999999999887665432223344444321 111222333333334333222 12233333333    


Q ss_pred             hcCCCcEEEEEeCCC
Q 038205          220 ESKSRKILVILDDVW  234 (375)
Q Consensus       220 ~l~~kr~LlVlDdv~  234 (375)
                      .+. +.-+|++|..-
T Consensus       425 ~l~-~~DLVLIDTaG  438 (559)
T PRK12727        425 RLR-DYKLVLIDTAG  438 (559)
T ss_pred             Hhc-cCCEEEecCCC
Confidence            333 34588888764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.86  E-value=0.00025  Score=73.01  Aligned_cols=172  Identities=17%  Similarity=0.170  Sum_probs=92.4

Q ss_pred             CCccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.+...+.|.+.+.             ...++-+.++|++|+|||++|+.+++....  .|     +.+...    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~--~f-----i~v~~~----  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA--NF-----IAVRGP----  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC--CE-----EEEehH----
Confidence            344566666666655442             123456899999999999999999998652  22     222211    


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--------------cccccCCCCCC--CCCC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--------------DLETIGIPVGD--RDNC  252 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--------------~~~~l~~~l~~--~~~g  252 (375)
                          +++..    ....+.......+..   .-...+++|+||+++...              ....+...+..  ...+
T Consensus       522 ----~l~~~----~vGese~~i~~~f~~---A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       522 ----EILSK----WVGESEKAIREIFRK---ARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             ----HHhhc----ccCcHHHHHHHHHHH---HHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence                11111    111122222222222   344578999999986421              01111111211  1234


Q ss_pred             cEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          253 CKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       253 s~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .-||.||...+....  .   .....+.+...+.++-.++|+.+.......++  .-...+++.+.|.--
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~--~~l~~la~~t~g~sg  658 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED--VDLEELAEMTEGYTG  658 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCcc--CCHHHHHHHcCCCCH
Confidence            556667765443221  1   23367888888999999999876542221111  113556777776543

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=0.0003  Score=67.88  Aligned_cols=130  Identities=17%  Similarity=0.211  Sum_probs=79.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      .+.-|.+|||+|+|||-||++|+|.....       |+++...    +++...   +|     .+.......+++   +-
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~N-------FisVKGP----ELlNkY---VG-----ESErAVR~vFqR---AR  601 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGAN-------FISVKGP----ELLNKY---VG-----ESERAVRQVFQR---AR  601 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCc-------eEeecCH----HHHHHH---hh-----hHHHHHHHHHHH---hh
Confidence            36678899999999999999999988754       3444322    222221   11     112222333333   55


Q ss_pred             CCCcEEEEEeCCCCcc-------------cccccCCCCCC--CCCCcEEEEEeCChhHHhh--hC---CCCcccCCCCCh
Q 038205          222 KSRKILVILDDVWKEL-------------DLETIGIPVGD--RDNCCKILLTTRLQQVCYR--MG---CDPRIKLDALDQ  281 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~-------------~~~~l~~~l~~--~~~gs~IivTTr~~~v~~~--~~---~~~~~~l~~L~~  281 (375)
                      ..-+|+|.||+++...             ...++...+..  ...|..||-.|..+++-..  +.   -+..+.++.-+.
T Consensus       602 ~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~  681 (802)
T KOG0733|consen  602 ASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNA  681 (802)
T ss_pred             cCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCH
Confidence            5689999999986421             12222222322  3456777776665554221  22   235677888888


Q ss_pred             HHHHHHHHHHcC
Q 038205          282 AEGLDLLRKHAG  293 (375)
Q Consensus       282 ~e~~~Lf~~~~~  293 (375)
                      +|-..+++....
T Consensus       682 ~eR~~ILK~~tk  693 (802)
T KOG0733|consen  682 EERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998876

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.85  E-value=0.0021  Score=60.13  Aligned_cols=88  Identities=23%  Similarity=0.181  Sum_probs=51.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCCCCCC-CHHHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWALTEK-DEEDRADRLRLMFS  219 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~l~~~~~  219 (375)
                      ...++.++|++|+||||++..+............+..++... .....+-++...+.++.+.... +..+....+.    
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~----  211 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALA----  211 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHH----
Confidence            357999999999999999999988764322123444444322 2234455566666666544322 2222322222    


Q ss_pred             hcCCCcEEEEEeCCC
Q 038205          220 ESKSRKILVILDDVW  234 (375)
Q Consensus       220 ~l~~kr~LlVlDdv~  234 (375)
                      .+.++ -++++|..-
T Consensus       212 ~l~~~-DlVLIDTaG  225 (374)
T PRK14722        212 ELRNK-HMVLIDTIG  225 (374)
T ss_pred             HhcCC-CEEEEcCCC
Confidence            34444 456689774

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.85  E-value=0.00032  Score=70.17  Aligned_cols=178  Identities=22%  Similarity=0.209  Sum_probs=104.3

Q ss_pred             CCCCCccchHHH---HHHHHHHHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          119 RFFSSFETTESA---CNQIIEALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       119 ~~~~~~~gr~~~---~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      -.+.++.|-++.   +.++++.|.++         -++=+.++||+|+|||-||++++....+-       |++++..  
T Consensus       308 V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGS--  378 (774)
T KOG0731|consen  308 VKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGS--  378 (774)
T ss_pred             CccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechH--
Confidence            344555666554   45555556554         26778999999999999999999988754       4444432  


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----------------cccccCCCCCCC
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----------------DLETIGIPVGDR  249 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----------------~~~~l~~~l~~~  249 (375)
                            +..+.+.    ........+....   +-...++++.+|+++...                 .+.++...+...
T Consensus       379 ------EFvE~~~----g~~asrvr~lf~~---ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf  445 (774)
T KOG0731|consen  379 ------EFVEMFV----GVGASRVRDLFPL---ARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGF  445 (774)
T ss_pred             ------HHHHHhc----ccchHHHHHHHHH---hhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCC
Confidence                  1111111    0111222233333   445688999999876421                 133333333332


Q ss_pred             CCCc--EEEEEeCChhHHhh-----hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          250 DNCC--KILLTTRLQQVCYR-----MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       250 ~~gs--~IivTTr~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ..+.  -++-+|...++.+.     -.-+..+.++.-+.....++|.-++.......+...+.+ |+...-|.+-|.
T Consensus       446 ~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  446 ETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHH
Confidence            2223  33335555444322     122367888888889999999998864433345566666 888888888765

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

Probab=97.85  E-value=4.3e-05  Score=66.60  Aligned_cols=36  Identities=36%  Similarity=0.351  Sum_probs=29.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      -.++|+|++|+|||||+..+.....  ..|.++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEec
Confidence            4788999999999999999987766  56877766644

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

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.84  E-value=0.0013  Score=59.66  Aligned_cols=86  Identities=22%  Similarity=0.287  Sum_probs=47.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecC-CCChhHHHHHHHHHhCCCCCC-CCHHHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQ-DPSIINVQSELVKSLGWALTE-KDEEDRADRLRLMF  218 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~~  218 (375)
                      ..++++|+|++|+||||++..++...... +.+ .+..++... .......+......++.+... .+..+....+.   
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~---  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALD---  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHH---
Confidence            35699999999999999999998877643 222 344444332 112233344444444444322 22333333333   


Q ss_pred             hhcCCCcEEEEEeCC
Q 038205          219 SESKSRKILVILDDV  233 (375)
Q Consensus       219 ~~l~~kr~LlVlDdv  233 (375)
                       .+.+ .-++++|..
T Consensus       269 -~~~~-~d~vliDt~  281 (282)
T TIGR03499       269 -RLRD-KDLILIDTA  281 (282)
T ss_pred             -HccC-CCEEEEeCC
Confidence             3433 347777753

>PRK08118 topology modulation protein; Reviewed

Probab=97.83  E-value=9.7e-06  Score=67.41  Aligned_cols=35  Identities=37%  Similarity=0.492  Sum_probs=28.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEE
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGI  178 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~w  178 (375)
                      +.|.|+|++|+||||||+.+++..... -+|+..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468999999999999999999987754 45666665

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.81  E-value=0.00011  Score=60.95  Aligned_cols=118  Identities=12%  Similarity=0.097  Sum_probs=62.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-C--CccE-EEEEEecCCCCh--hHHHHHHHHHhCCCCCCCCH-HHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-N--IFDK-VGIATVSQDPSI--INVQSELVKSLGWALTEKDE-EDRADR  213 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~--~f~~-~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~-~~~~~~  213 (375)
                      ....+++|+|++|+|||||++.+....... +  .++. ..-..+++.+..  ..+...+...   .....+. +...-.
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~  101 (166)
T cd03223          25 KPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLA  101 (166)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHHHH
Confidence            356799999999999999999998876532 1  1111 011123333221  1233333210   1122222 233333


Q ss_pred             HHHHhhhcCCCcEEEEEeCCCCccc---ccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          214 LRLMFSESKSRKILVILDDVWKELD---LETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       214 l~~~~~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      +..   .+..++-++++|+....-+   ...+...+...  +..||++|++.....
T Consensus       102 lar---al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~  152 (166)
T cd03223         102 FAR---LLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK  152 (166)
T ss_pred             HHH---HHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence            444   7777888999998764321   11111111111  367899999876543

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

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

Probab=97.80  E-value=6.4e-05  Score=66.10  Aligned_cols=126  Identities=18%  Similarity=0.261  Sum_probs=69.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC-----------C-----c-cEEEEEEecCC----------------C--
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN-----------I-----F-DKVGIATVSQD----------------P--  185 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----------~-----f-~~~~wv~~~~~----------------~--  185 (375)
                      +...+++|+||+|+|||||.+.++.-.+...           .     + ....++.-+..                +  
T Consensus        26 ~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~~~~~kelAk~ia~vpQ~~~~~~~~tV~d~V~~GR~p~~  105 (258)
T COG1120          26 PKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRYPHL  105 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchhhcCHHHHhhhEEEeccCCCCCCCcEEeehHhhcCCccc
Confidence            3567999999999999999999987654310           0     0 01122211100                0  


Q ss_pred             --------ChhHHHHHHHHHhCC------CCCCCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc------ccccCC
Q 038205          186 --------SIINVQSELVKSLGW------ALTEKDE-EDRADRLRLMFSESKSRKILVILDDVWKELD------LETIGI  244 (375)
Q Consensus       186 --------~~~~~~~~i~~~l~~------~~~~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~------~~~l~~  244 (375)
                              .-.....+.++.++.      ...+.+. +...-.+..   .|..+.=+|+||+-.+.-+      .-++..
T Consensus       106 ~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iAr---ALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~  182 (258)
T COG1120         106 GLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIAR---ALAQETPILLLDEPTSHLDIAHQIEVLELLR  182 (258)
T ss_pred             ccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHH---HHhcCCCEEEeCCCccccCHHHHHHHHHHHH
Confidence                    011133344444432      2223333 223334444   8888888999998654321      111212


Q ss_pred             CCCCCCCCcEEEEEeCChhHHhhhCC
Q 038205          245 PVGDRDNCCKILLTTRLQQVCYRMGC  270 (375)
Q Consensus       245 ~l~~~~~gs~IivTTr~~~v~~~~~~  270 (375)
                      .+. ...|..||+++++.+.|.....
T Consensus       183 ~l~-~~~~~tvv~vlHDlN~A~ryad  207 (258)
T COG1120         183 DLN-REKGLTVVMVLHDLNLAARYAD  207 (258)
T ss_pred             HHH-HhcCCEEEEEecCHHHHHHhCC
Confidence            221 2357789999999988776543

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

Probab=97.80  E-value=6.2e-05  Score=63.04  Aligned_cols=106  Identities=18%  Similarity=0.148  Sum_probs=58.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC---CccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN---IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLM  217 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~  217 (375)
                      +...+++|+|++|+|||||++.+........   .++..-...+.+...                 -.......-.+.. 
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~-----------------LSgGq~qrv~lar-   84 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYID-----------------LSGGELQRVAIAA-   84 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCC-----------------CCHHHHHHHHHHH-
Confidence            4567999999999999999999988765321   111110111222211                 1111222233333 


Q ss_pred             hhhcCCCcEEEEEeCCCCccc---ccccCCCCCC--CCCCcEEEEEeCChhHHh
Q 038205          218 FSESKSRKILVILDDVWKELD---LETIGIPVGD--RDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       218 ~~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~--~~~gs~IivTTr~~~v~~  266 (375)
                        .+..++-++++|+....-+   ...+...+..  ...+..||++|++.....
T Consensus        85 --al~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          85 --ALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             --HHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence              7777888999998764321   1111111111  112367899999876554

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.80  E-value=8.4e-05  Score=62.55  Aligned_cols=27  Identities=30%  Similarity=0.541  Sum_probs=24.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|.|++|+|||||++.+.....
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            467999999999999999999988754

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.

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

Probab=97.78  E-value=0.00015  Score=61.36  Aligned_cols=122  Identities=15%  Similarity=0.134  Sum_probs=69.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEE-------------------EecCCCCh--------------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIA-------------------TVSQDPSI--------------  187 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv-------------------~~~~~~~~--------------  187 (375)
                      ....+++|+||+|+|||||.+.+..-.....   ..+|+                   .|.|.|++              
T Consensus        26 ~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~---G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap  102 (240)
T COG1126          26 EKGEVVVIIGPSGSGKSTLLRCLNGLEEPDS---GSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAP  102 (240)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCcCCCC---ceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhh
Confidence            3567999999999999999999876554321   12222                   12333321              


Q ss_pred             -----------hHHHHHHHHHhCCCCC-------CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccccc---ccCCC-
Q 038205          188 -----------INVQSELVKSLGWALT-------EKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLE---TIGIP-  245 (375)
Q Consensus       188 -----------~~~~~~i~~~l~~~~~-------~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~---~l~~~-  245 (375)
                                 .....+++..++....       -....+..-.+.+   +|.-++-++.||+..+.-+-+   ++..- 
T Consensus       103 ~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIAR---ALaM~P~vmLFDEPTSALDPElv~EVL~vm  179 (240)
T COG1126         103 VKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIAR---ALAMDPKVMLFDEPTSALDPELVGEVLDVM  179 (240)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHH---HHcCCCCEEeecCCcccCCHHHHHHHHHHH
Confidence                       1222244444443211       1122333445555   888889999999987652211   11100 


Q ss_pred             CCCCCCCcEEEEEeCChhHHhhh
Q 038205          246 VGDRDNCCKILLTTRLQQVCYRM  268 (375)
Q Consensus       246 l~~~~~gs~IivTTr~~~v~~~~  268 (375)
                      ..-...|-..|+.|+....|...
T Consensus       180 ~~LA~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         180 KDLAEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHcCCeEEEEechhHHHHHh
Confidence            11124567888999987776654

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.77  E-value=0.00066  Score=60.87  Aligned_cols=38  Identities=34%  Similarity=0.416  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+++..++..+  ..+.+.|++|+|||++|+.+....
T Consensus         8 ~~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640         8 KRVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            34455556655543  467799999999999999998744

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).

>PRK08116 hypothetical protein; Validated

Probab=97.76  E-value=4e-05  Score=68.79  Aligned_cols=102  Identities=21%  Similarity=0.187  Sum_probs=57.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.++|++|+|||.||..+++.....  -..+++++      ...++..+........    .......+ +   .+.
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~----~~~~~~~~-~---~l~  177 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSG----KEDENEII-R---SLV  177 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhccc----cccHHHHH-H---Hhc
Confidence            3468899999999999999999998754  23445554      3345555544432211    11111112 2   343


Q ss_pred             CCcEEEEEeCCCC--cccccc--cCCCCCC-CCCCcEEEEEeCC
Q 038205          223 SRKILVILDDVWK--ELDLET--IGIPVGD-RDNCCKILLTTRL  261 (375)
Q Consensus       223 ~kr~LlVlDdv~~--~~~~~~--l~~~l~~-~~~gs~IivTTr~  261 (375)
                      +-. ||||||+..  ...|..  +...+.. ...+..+|+||..
T Consensus       178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            333 899999953  233322  2111211 1345678888864

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

Probab=97.73  E-value=0.0001  Score=61.68  Aligned_cols=113  Identities=20%  Similarity=0.174  Sum_probs=60.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh---cC---Ccc--EEEEEEecCCCChhHHHHHHHHHhCCCC---CC----C
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ---NN---IFD--KVGIATVSQDPSIINVQSELVKSLGWAL---TE----K  205 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~---~f~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~---~~----~  205 (375)
                      ....+++|+|++|+|||||.+.+....-.   ..   .|.  .+.|  +.+        .+.+..++...   ..    .
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~--~~q--------~~~l~~~~L~~~~~~~~~~~L   88 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIF--IDQ--------LQFLIDVGLGYLTLGQKLSTL   88 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEE--EhH--------HHHHHHcCCCccccCCCcCcC
Confidence            35679999999999999999988532110   00   111  1222  222        34556555321   11    1


Q ss_pred             CH-HHHHHHHHHHhhhcCCC--cEEEEEeCCCCccc---ccccCCCCCC-CCCCcEEEEEeCChhHHh
Q 038205          206 DE-EDRADRLRLMFSESKSR--KILVILDDVWKELD---LETIGIPVGD-RDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       206 ~~-~~~~~~l~~~~~~l~~k--r~LlVlDdv~~~~~---~~~l~~~l~~-~~~gs~IivTTr~~~v~~  266 (375)
                      +. ....-.+..   .+..+  +-++++|+....-+   .+.+...+.. ...|..||++|++.+...
T Consensus        89 SgGq~qrl~lar---al~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          89 SGGELQRVKLAS---ELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             CHHHHHHHHHHH---HHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            11 122222333   66667  78999998765321   1111111111 124678999999987654

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.

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

Probab=97.71  E-value=8.7e-05  Score=63.30  Aligned_cols=57  Identities=25%  Similarity=0.307  Sum_probs=39.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec-CCCChhHHHHHHHHHhCCC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS-QDPSIINVQSELVKSLGWA  201 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~  201 (375)
                      +++|.++|+.|+||||.+..++.....+  -..+..++.. ......+-++..++.++.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            4689999999999999888888877754  3345555543 2234556667777777654

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

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.71  E-value=0.00014  Score=60.72  Aligned_cols=28  Identities=29%  Similarity=0.385  Sum_probs=24.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~~   53 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLYD   53 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            3567999999999999999999988765

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.

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

Probab=97.70  E-value=0.00012  Score=63.09  Aligned_cols=126  Identities=15%  Similarity=0.210  Sum_probs=70.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-------------------CCccEEEEEEecCCCCh--------------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-------------------NIFDKVGIATVSQDPSI--------------  187 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------------~~f~~~~wv~~~~~~~~--------------  187 (375)
                      ....+++|+||+|+|||||...+..-.+..                   ..|...-.-.+.|.+++              
T Consensus        29 ~~Ge~vaI~GpSGSGKSTLLniig~ld~pt~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~ENv~lpl  108 (226)
T COG1136          29 EAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVELPL  108 (226)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccCCCCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCCHHHHHHhHH
Confidence            456799999999999999999886543321                   01111111122333321              


Q ss_pred             ----------hHHHHHHHHHhCCCC-------CCC-CHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc------ccccccC
Q 038205          188 ----------INVQSELVKSLGWAL-------TEK-DEEDRADRLRLMFSESKSRKILVILDDVWKE------LDLETIG  243 (375)
Q Consensus       188 ----------~~~~~~i~~~l~~~~-------~~~-~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~------~~~~~l~  243 (375)
                                ......+++.++...       .+. ..++..-.+.+   ++...+-+|+-|+-...      .....+.
T Consensus       109 ~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIAR---AL~~~P~iilADEPTgnLD~~t~~~V~~ll  185 (226)
T COG1136         109 LIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIAR---ALINNPKIILADEPTGNLDSKTAKEVLELL  185 (226)
T ss_pred             HHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHH---HHhcCCCeEEeeCccccCChHHHHHHHHHH
Confidence                      122334444444321       111 12334445555   88889999999976432      1122221


Q ss_pred             CCCCCCCCCcEEEEEeCChhHHhhhCC
Q 038205          244 IPVGDRDNCCKILLTTRLQQVCYRMGC  270 (375)
Q Consensus       244 ~~l~~~~~gs~IivTTr~~~v~~~~~~  270 (375)
                      ..+ ....|..||+.|++..++..++.
T Consensus       186 ~~~-~~~~g~tii~VTHd~~lA~~~dr  211 (226)
T COG1136         186 REL-NKERGKTIIMVTHDPELAKYADR  211 (226)
T ss_pred             HHH-HHhcCCEEEEEcCCHHHHHhCCE
Confidence            111 12347899999999999986543

>PRK07261 topology modulation protein; Provisional

Probab=97.69  E-value=0.00012  Score=61.06  Aligned_cols=34  Identities=24%  Similarity=0.385  Sum_probs=25.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEE
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGI  178 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~w  178 (375)
                      .|.|+|++|+||||||+.+....... -+.+...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            58999999999999999998765432 13344444

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.69  E-value=0.00055  Score=70.58  Aligned_cols=172  Identities=17%  Similarity=0.164  Sum_probs=89.8

Q ss_pred             CCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.+..+++|.+.+..             ..++-+.++|++|+|||+||+.+++....  .|   +.+..+      
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~--~~---i~i~~~------  246 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA--YF---ISINGP------  246 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC--eE---EEEecH------
Confidence            4467888888888776521             23567899999999999999999887642  12   222211      


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-------------cccccCCCCCC-CCCCcE
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-------------DLETIGIPVGD-RDNCCK  254 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-------------~~~~l~~~l~~-~~~gs~  254 (375)
                      .+    ....    ...........+..   .....+.+|+|||++...             ....+...+.. ...+..
T Consensus       247 ~i----~~~~----~g~~~~~l~~lf~~---a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       247 EI----MSKY----YGESEERLREIFKE---AEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             HH----hccc----ccHHHHHHHHHHHH---HHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence            11    0000    01111222222222   344567899999985421             01112111111 122333


Q ss_pred             EEE-EeCChh-HHhhh----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          255 ILL-TTRLQQ-VCYRM----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       255 Iiv-TTr~~~-v~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      +++ ||.... +-..+    .....+.+...+.++-.+++..........+  ......+++.+.|..-
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~--d~~l~~la~~t~G~~g  382 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE--DVDLDKLAEVTHGFVG  382 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc--ccCHHHHHHhCCCCCH
Confidence            444 454332 21111    1124577787888888888886553221111  1124667777777653

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.66  E-value=0.0025  Score=59.00  Aligned_cols=90  Identities=12%  Similarity=0.120  Sum_probs=56.1

Q ss_pred             CCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCC
Q 038205          222 KSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVA  297 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~  297 (375)
                      .+++-++|+|+++..  .....+...+..-.+++.+|++|.+ ..+.... +.-..+.+.+++.++..+.+... +.   
T Consensus       130 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~~---  205 (342)
T PRK06964        130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-GV---  205 (342)
T ss_pred             cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-CC---
Confidence            345668899998754  3444444444433455666666655 4444333 33367899999999999988765 21   


Q ss_pred             CCCchHHHHHHHHHcCCchhHHH
Q 038205          298 DKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       298 ~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ++     ...++..++|.|+...
T Consensus       206 ~~-----~~~~l~~~~Gsp~~Al  223 (342)
T PRK06964        206 AD-----ADALLAEAGGAPLAAL  223 (342)
T ss_pred             Ch-----HHHHHHHcCCCHHHHH
Confidence            11     2335778899997544

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.66  E-value=0.00012  Score=61.22  Aligned_cols=28  Identities=32%  Similarity=0.550  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (173)
T cd03246          26 EPGESLAIIGPSGSGKSTLARLILGLLR   53 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            3567999999999999999999988754

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

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

Probab=97.65  E-value=0.00016  Score=62.59  Aligned_cols=171  Identities=18%  Similarity=0.208  Sum_probs=97.7

Q ss_pred             CCCccchHHHH---HHHHHHHhcC------CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHH
Q 038205          121 FSSFETTESAC---NQIIEALKKD------STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQ  191 (375)
Q Consensus       121 ~~~~~gr~~~~---~~l~~~l~~~------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  191 (375)
                      +...+|.++..   .-|++.|.++      .++-|..+||+|.|||-+|+.+.+..++.  |     +.+..    ..+ 
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vka----t~l-  187 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVKA----TEL-  187 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEech----HHH-
Confidence            34567777654   4456667664      37889999999999999999999988753  2     22211    111 


Q ss_pred             HHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--------------ccccccCCCCCC--CCCCcE
Q 038205          192 SELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--------------LDLETIGIPVGD--RDNCCK  254 (375)
Q Consensus       192 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--------------~~~~~l~~~l~~--~~~gs~  254 (375)
                        |-+.         ..+...+++++.+ +-+.-+|++.+|+++..              +....+...+..  .+.|..
T Consensus       188 --iGeh---------VGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         188 --IGEH---------VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             --HHHH---------hhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence              1111         1233344444433 34458999999987532              111222222221  345666


Q ss_pred             EEEEeCChhHHhh-h--CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          255 ILLTTRLQQVCYR-M--GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       255 IivTTr~~~v~~~-~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                      -|-.|.+.++... .  .....++..--+.+|-.+++..++..-..+-+  .-.+.++++.+|+-
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~--~~~~~~~~~t~g~S  319 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD--ADLRYLAAKTKGMS  319 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc--cCHHHHHHHhCCCC
Confidence            6666665554332 1  12245677777889999999988742211211  12456666776653

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.63  E-value=0.0002  Score=58.01  Aligned_cols=106  Identities=19%  Similarity=0.250  Sum_probs=57.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      ....+++|+|++|+|||||++.+.......   ...+++....             .++....-.......-.+..   .
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~---~G~i~~~~~~-------------~i~~~~~lS~G~~~rv~lar---a   84 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELEPD---EGIVTWGSTV-------------KIGYFEQLSGGEKMRLALAK---L   84 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCCCC---ceEEEECCeE-------------EEEEEccCCHHHHHHHHHHH---H
Confidence            346799999999999999999998876532   2222221100             00000001111222233344   7


Q ss_pred             cCCCcEEEEEeCCCCccc---ccccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          221 SKSRKILVILDDVWKELD---LETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~~---~~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      +..++-++++|+....-+   ...+...+...  +..||++|++.+....
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~  132 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ  132 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence            777888999998764311   11121111111  2478999998765543

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.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.63  E-value=0.00022  Score=59.68  Aligned_cols=109  Identities=23%  Similarity=0.272  Sum_probs=60.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE-----------------ecCCCCh---hHHHHHHHHHhCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT-----------------VSQDPSI---INVQSELVKSLGW  200 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~-----------------~~~~~~~---~~~~~~i~~~l~~  200 (375)
                      ....+++|+|++|+|||||++.+.......   ...+++.                 +++.+..   ..+...+.     
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~---~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~-----   95 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLLKPD---SGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLK-----   95 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCCC---CeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhh-----
Confidence            346799999999999999999998865421   1222221                 1111110   11111111     


Q ss_pred             CCCCCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc------ccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          201 ALTEKDE-EDRADRLRLMFSESKSRKILVILDDVWKELD------LETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       201 ~~~~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                          .+. +...-.+..   .+..++-++++|+....-+      +..+...+.  ..|..+|++|++.....
T Consensus        96 ----LS~G~~qrv~lar---al~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~--~~g~tiii~th~~~~~~  159 (173)
T cd03230          96 ----LSGGMKQRLALAQ---ALLHDPELLILDEPTSGLDPESRREFWELLRELK--KEGKTILLSSHILEEAE  159 (173)
T ss_pred             ----cCHHHHHHHHHHH---HHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHH--HCCCEEEEECCCHHHHH
Confidence                111 222223334   7778889999998765422      222212222  23678999999877654

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.62  E-value=5.8e-05  Score=63.38  Aligned_cols=37  Identities=30%  Similarity=0.332  Sum_probs=26.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      ...-+.++|++|+|||.||..+.+..-..+ + .+.|+.
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~-~v~f~~   82 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKG-Y-SVLFIT   82 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEE
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCC-c-ceeEee
Confidence            456799999999999999999998776532 2 345554

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.60  E-value=0.0001  Score=61.01  Aligned_cols=117  Identities=15%  Similarity=0.141  Sum_probs=62.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC--CChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD--PSIINVQSELVKSLGWALTEKDEEDRADRLRLMF  218 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~  218 (375)
                      ....+++|.|++|+|||||.+.+......   ....+++....-  .+.....   ...++....-...+...-.+..  
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~---~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~qLS~G~~qrl~lar--   95 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLYKP---DSGEILVDGKEVSFASPRDAR---RAGIAMVYQLSVGERQMVEIAR--   95 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCCCC---CCeEEEECCEECCcCCHHHHH---hcCeEEEEecCHHHHHHHHHHH--
Confidence            35679999999999999999999887643   233333321111  1111111   1111111111112223333444  


Q ss_pred             hhcCCCcEEEEEeCCCCccc---ccccCCCCCC-CCCCcEEEEEeCChhHHh
Q 038205          219 SESKSRKILVILDDVWKELD---LETIGIPVGD-RDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       219 ~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~-~~~gs~IivTTr~~~v~~  266 (375)
                       .+..++-++++|+..+.-+   ...+...+.. ...|..||++|++.....
T Consensus        96 -al~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          96 -ALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             -HHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence             7777889999998765321   1112111211 123678999999876443

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.

>TIGR01069 mutS2 MutS2 family protein

Probab=97.59  E-value=5.4e-05  Score=77.55  Aligned_cols=188  Identities=16%  Similarity=0.138  Sum_probs=89.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh-hh-cCCccEEEEEEecCCCChhHHHHHHHHHhCCCC----CCCCHHHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL-RQ-NNIFDKVGIATVSQDPSIINVQSELVKSLGWAL----TEKDEEDRADRLRL  216 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~-~~-~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----~~~~~~~~~~~l~~  216 (375)
                      .+++.|+||+|.||||+.+.+.... .. .+.|     +..... .....+.++...++...    ...+...-...+..
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~~l~aq~G~~-----Vpa~~~-~~~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~  395 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLLALMFQSGIP-----IPANEH-SEIPYFEEIFADIGDEQSIEQNLSTFSGHMKNISA  395 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHHHHHHHhCCC-----ccCCcc-ccccchhheeeecChHhHHhhhhhHHHHHHHHHHH
Confidence            3789999999999999999987662 11 1111     111000 00001111111111000    00001111112333


Q ss_pred             HhhhcCCCcEEEEEeCCCCccc---cc----ccCCCCCCCCCCcEEEEEeCChhHHhhhCCCCcccCCCCChHHHHHHHH
Q 038205          217 MFSESKSRKILVILDDVWKELD---LE----TIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       217 ~~~~l~~kr~LlVlDdv~~~~~---~~----~l~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~~~l~~L~~~e~~~Lf~  289 (375)
                      ++..+ ..+-|+++|++....+   -.    .+...+.  ..|+.+|+||+...+.........+.-..+.-++-.--|.
T Consensus       396 il~~~-~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~p~  472 (771)
T TIGR01069       396 ILSKT-TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLSPT  472 (771)
T ss_pred             HHHhc-CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCceE
Confidence            33233 5788999999875422   11    1212221  3578999999998775443221111100001000000011


Q ss_pred             HHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhhh
Q 038205          290 KHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQN  343 (375)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~l~~  343 (375)
                      ..+....  +. ...|-.|++++ |+|-.+..-|.-+......+.+.++..|..
T Consensus       473 Ykl~~G~--~g-~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~~  522 (771)
T TIGR01069       473 YKLLKGI--PG-ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLSA  522 (771)
T ss_pred             EEECCCC--CC-CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            1111111  11 34566777776 889888888877765555567777776655

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.59  E-value=0.00026  Score=59.71  Aligned_cols=118  Identities=19%  Similarity=0.178  Sum_probs=63.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec--CCCChhH------HHHHHHHHhCCCC------CCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS--QDPSIIN------VQSELVKSLGWAL------TEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~--~~~~~~~------~~~~i~~~l~~~~------~~~~~  207 (375)
                      ...+++|.|++|+|||||++.+......   ....+++.-.  ...+...      ...++++.++...      ...+.
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~---~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKP---SSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC---CCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            5679999999999999999999987643   2233332211  1111111      1112444444321      11121


Q ss_pred             -HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc---ccccCCCCCC--CCCCcEEEEEeCChhHH
Q 038205          208 -EDRADRLRLMFSESKSRKILVILDDVWKELD---LETIGIPVGD--RDNCCKILLTTRLQQVC  265 (375)
Q Consensus       208 -~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~--~~~gs~IivTTr~~~v~  265 (375)
                       ....-.+..   .+...+-++++|+....-+   .+.+...+..  ...+..||++|++....
T Consensus       101 G~~qrl~lar---al~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         101 GERQRVLLAR---ALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHH---HHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence             222233333   7777889999998764321   1222122211  11257899999986654

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.56  E-value=0.0054  Score=58.75  Aligned_cols=85  Identities=21%  Similarity=0.259  Sum_probs=46.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh-hcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCCCCC-CCHHHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR-QNNIFDKVGIATVSQDP-SIINVQSELVKSLGWALTE-KDEEDRADRLRLMFS  219 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~  219 (375)
                      .+++.++|++|+||||++..++.... ... -..+..++..... ....-++...+.++.+... .+..+....+.    
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~-g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~----  295 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYG-KKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALE----  295 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHH----
Confidence            46999999999999999998877665 222 2344455433211 1122333334444443322 22333333333    


Q ss_pred             hcCCCcEEEEEeCC
Q 038205          220 ESKSRKILVILDDV  233 (375)
Q Consensus       220 ~l~~kr~LlVlDdv  233 (375)
                      .+. ..-++++|..
T Consensus       296 ~~~-~~DlVlIDt~  308 (424)
T PRK05703        296 QLR-DCDVILIDTA  308 (424)
T ss_pred             HhC-CCCEEEEeCC
Confidence            233 3468888965

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.00048  Score=67.65  Aligned_cols=152  Identities=18%  Similarity=0.087  Sum_probs=82.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMF-SE  220 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~  220 (375)
                      ..+-|.|.|+.|+|||+||+.+++... .+...++..++.+.-.                  ....+..+..+..++ ++
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~------------------~~~~e~iQk~l~~vfse~  490 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLD------------------GSSLEKIQKFLNNVFSEA  490 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhcc------------------chhHHHHHHHHHHHHHHH
Confidence            356789999999999999999999887 3444555555544321                  111122222222221 17


Q ss_pred             cCCCcEEEEEeCCCCc--------ccccc-----------cCCCCCCCCCCcE--EEEEeCChhH-Hhh----hCCCCcc
Q 038205          221 SKSRKILVILDDVWKE--------LDLET-----------IGIPVGDRDNCCK--ILLTTRLQQV-CYR----MGCDPRI  274 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~--------~~~~~-----------l~~~l~~~~~gs~--IivTTr~~~v-~~~----~~~~~~~  274 (375)
                      +...+-++||||++..        .+|..           +...+  ...+.+  +|.|.....- -..    .-...+.
T Consensus       491 ~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y--~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~  568 (952)
T KOG0735|consen  491 LWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIY--LKRNRKIAVIATGQELQTLNPLLVSPLLFQIVI  568 (952)
T ss_pred             HhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHH--HccCcEEEEEEechhhhhcChhhcCccceEEEE
Confidence            7778999999998632        11211           11111  123333  4444433211 111    1112457


Q ss_pred             cCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          275 KLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       275 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      .+..+...+-.++++.......... ......-+..+|+|.
T Consensus       569 ~L~ap~~~~R~~IL~~~~s~~~~~~-~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  569 ALPAPAVTRRKEILTTIFSKNLSDI-TMDDLDFLSVKTEGY  608 (952)
T ss_pred             ecCCcchhHHHHHHHHHHHhhhhhh-hhHHHHHHHHhcCCc
Confidence            8888888888888877664222111 122334477777765

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.56  E-value=0.00035  Score=59.54  Aligned_cols=128  Identities=18%  Similarity=0.221  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC--C-------C----hhHHHHH
Q 038205          127 TESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD--P-------S----IINVQSE  193 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~-------~----~~~~~~~  193 (375)
                      +..+....++.|.  ...++.+.|++|+|||.||-...-+.-..+.|+.++++.-.-.  .       +    ....+.-
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p   82 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRP   82 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHH
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHH
Confidence            3455556666665  4569999999999999999988766655578888777642211  0       1    1112222


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHH------HhhhcCC---CcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          194 LVKSLGWALTEKDEEDRADRLRL------MFSESKS---RKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~------~~~~l~~---kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      +...+..-......+.   .+.+      -+.++++   ...++|+|++++.  .++..+....   +.|||+|++--..
T Consensus        83 ~~d~l~~~~~~~~~~~---~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~---g~~skii~~GD~~  156 (205)
T PF02562_consen   83 IYDALEELFGKEKLEE---LIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTRI---GEGSKIIITGDPS  156 (205)
T ss_dssp             HHHHHTTTS-TTCHHH---HHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB----TT-EEEEEE---
T ss_pred             HHHHHHHHhChHhHHH---HhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHccc---CCCcEEEEecCce
Confidence            3333322222222221   2211      1235555   3569999999875  4676664444   5679999987654

; GO: 0005524 ATP binding; PDB: 3B85_A.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.55  E-value=0.00012  Score=62.65  Aligned_cols=112  Identities=10%  Similarity=0.088  Sum_probs=61.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh-HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII-NVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      +.|.|+|+.|+||||++..+.......  ....++.. ..+.... .-...+..+-..   ........+.+..   .+.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~--~~~~i~t~-e~~~E~~~~~~~~~i~q~~v---g~~~~~~~~~i~~---aLr   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN--KTHHILTI-EDPIEFVHESKRSLINQREV---GLDTLSFENALKA---ALR   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc--CCcEEEEE-cCCccccccCccceeeeccc---CCCccCHHHHHHH---Hhc
Confidence            578999999999999999887766532  22233321 1111100 000011111000   0111233445555   676


Q ss_pred             CCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          223 SRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      ..+=++++|++.+.+.+......   ...|..++.|++..+....
T Consensus        73 ~~pd~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~~~  114 (198)
T cd01131          73 QDPDVILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSAAKT  114 (198)
T ss_pred             CCcCEEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcHHHH
Confidence            67789999999876655433222   2345678889987766543

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.0028  Score=58.51  Aligned_cols=88  Identities=15%  Similarity=0.132  Sum_probs=47.2

Q ss_pred             CCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCChh-HHhhhC-CCCcccCCCCChHHHHHHHHHHcCCCCCC
Q 038205          223 SRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQQ-VCYRMG-CDPRIKLDALDQAEGLDLLRKHAGIDVAD  298 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~~-v~~~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~  298 (375)
                      +++-++|+|++...+  .-..+...+.....++.+|++|++.. +..... .-..+++.+++.+++.+.+... +.   .
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~-~~---~  187 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER-GV---A  187 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc-CC---C
Confidence            344455668776542  11122222221123467888888754 333322 2267889999999998888654 11   1


Q ss_pred             CCchHHHHHHHHHcCCchhHH
Q 038205          299 KTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       299 ~~~~~~~~~i~~~~~glPlai  319 (375)
                      .  .   ...+..++|.|+.+
T Consensus       188 ~--~---~~~l~~~~g~p~~~  203 (325)
T PRK08699        188 E--P---EERLAFHSGAPLFD  203 (325)
T ss_pred             c--H---HHHHHHhCCChhhh
Confidence            1  1   11235678888643

>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=97.52  E-value=8e-05  Score=58.24  Aligned_cols=24  Identities=38%  Similarity=0.533  Sum_probs=22.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|.|.|++|+||||+|+.+.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            689999999999999999999764

...

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.51  E-value=0.00061  Score=60.94  Aligned_cols=40  Identities=28%  Similarity=0.474  Sum_probs=30.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc--CCccEEEEEEec
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN--NIFDKVGIATVS  182 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~f~~~~wv~~~  182 (375)
                      .++|.++||+|.|||+|++.+++...++  +.|.....+.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin  218 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN  218 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe
Confidence            6899999999999999999999998764  344444444443

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.51  E-value=0.0055  Score=58.23  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=22.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++++|++|+||||++..+....
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999887754

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.49  E-value=0.00099  Score=58.66  Aligned_cols=93  Identities=17%  Similarity=0.122  Sum_probs=54.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++.|+|++|+|||+|+.+++.......    .-..++|++....++.. -+.++++..+....          ..+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~-rl~~~~~~~~~~~~~~~~~i~~~~~~~~   96 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPE-RLVQIAERFGLDPEEVLDNIYVARAYNS   96 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHH-HHHHHHHHhccChHhHhcCEEEEecCCH
Confidence            467999999999999999999975532211    12568898877766543 33344444332111          1222


Q ss_pred             HHHHHHHHHHhhhcC-C-CcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESK-S-RKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~-kr~LlVlDdv~~  235 (375)
                      .+....+..+...+. . +.-++|+|.+..
T Consensus        97 ~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          97 DHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            333333333333333 3 567999998853

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 .

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

Probab=97.49  E-value=0.0028  Score=60.47  Aligned_cols=158  Identities=23%  Similarity=0.262  Sum_probs=91.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ES  221 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l  221 (375)
                      ...+.+.|++|+|||+||..++....    |+.+--++-..-                  ...+....-..+.+.++ +-
T Consensus       538 lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiSpe~m------------------iG~sEsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  538 LVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIISPEDM------------------IGLSESAKCAHIKKIFEDAY  595 (744)
T ss_pred             ceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeChHHc------------------cCccHHHHHHHHHHHHHHhh
Confidence            45678999999999999999987654    665443321110                  01111112222222211 44


Q ss_pred             CCCcEEEEEeCCCCcccccccCCCCCC-------------CCCCcE--EEEEeCChhHHhhhCCC----CcccCCCCCh-
Q 038205          222 KSRKILVILDDVWKELDLETIGIPVGD-------------RDNCCK--ILLTTRLQQVCYRMGCD----PRIKLDALDQ-  281 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~~~~~l~~~l~~-------------~~~gs~--IivTTr~~~v~~~~~~~----~~~~l~~L~~-  281 (375)
                      +..--.||+||+...-+|-.++..+..             -..|-|  |+-||....+...|+-.    ..|.++.++. 
T Consensus       596 kS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~  675 (744)
T KOG0741|consen  596 KSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTG  675 (744)
T ss_pred             cCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCch
Confidence            556679999999887777666554321             123334  44466666776665432    5688888887 


Q ss_pred             HHHHHHHHHHc-CCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc
Q 038205          282 AEGLDLLRKHA-GIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR  327 (375)
Q Consensus       282 ~e~~~Lf~~~~-~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~  327 (375)
                      ++..+.++..- |.   +.....++++...+|  +-.+|+.+-.++.
T Consensus       676 ~~~~~vl~~~n~fs---d~~~~~~~~~~~~~~--~~vgIKklL~lie  717 (744)
T KOG0741|consen  676 EQLLEVLEELNIFS---DDEVRAIAEQLLSKK--VNVGIKKLLMLIE  717 (744)
T ss_pred             HHHHHHHHHccCCC---cchhHHHHHHHhccc--cchhHHHHHHHHH
Confidence            77777776543 22   334455666666666  3344555544443

>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=97.48  E-value=0.0026  Score=58.90  Aligned_cols=42  Identities=24%  Similarity=0.487  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHhc---CCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          129 SACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       129 ~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...+.|.+.+.+   +.+.+|+|.|+-|+||||+.+.+.+..+..
T Consensus         3 ~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    3 PYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             HHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            445566666654   457899999999999999999999988765

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 [].

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.48  E-value=0.01  Score=55.34  Aligned_cols=87  Identities=22%  Similarity=0.285  Sum_probs=52.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCCCC-CCCHHHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWALT-EKDEEDRADRLRLMFS  219 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~l~~~~~  219 (375)
                      +.+++.++|+.|+||||++..++......+  ..+.+++... ......-++...+.++.+.. ..++.+....+..   
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~---  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQY---  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHH---
Confidence            467999999999999999999987765432  2455555432 22334455666666654432 2344444444433   


Q ss_pred             hcC--CCcEEEEEeCCC
Q 038205          220 ESK--SRKILVILDDVW  234 (375)
Q Consensus       220 ~l~--~kr~LlVlDdv~  234 (375)
                       +.  +..-++++|-.-
T Consensus       280 -l~~~~~~D~VLIDTAG  295 (407)
T PRK12726        280 -MTYVNCVDHILIDTVG  295 (407)
T ss_pred             -HHhcCCCCEEEEECCC
Confidence             32  344678888664

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.47  E-value=0.0041  Score=59.59  Aligned_cols=57  Identities=26%  Similarity=0.455  Sum_probs=35.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGW  200 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~  200 (375)
                      .+.+|.++|++|+||||++..++......+ + .+..++... .+...+.++.+..+++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence            467899999999999999999988776532 2 223332221 12233445555565554

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.46  E-value=0.0013  Score=59.16  Aligned_cols=170  Identities=22%  Similarity=0.201  Sum_probs=95.6

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC-hhHHHHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS-IINVQSELVK  196 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~  196 (375)
                      ..++|..++..++..++.+    ++..-+.|+||.|+|||+|......+..  ..-....-+....... -.-.++.|.+
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q--~~~E~~l~v~Lng~~~~dk~al~~I~r  101 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQ--ENGENFLLVRLNGELQTDKIALKGITR  101 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHH--hcCCeEEEEEECccchhhHHHHHHHHH
Confidence            5678888888888888754    4667889999999999999888777722  1112233333333221 1224555555


Q ss_pred             HhCCCCC--CCCHHHHHHHHHHHhhhcC------CCcEEEEEeCCCCcc----c--ccccC-CCCCCCCCCcEEEEEeCC
Q 038205          197 SLGWALT--EKDEEDRADRLRLMFSESK------SRKILVILDDVWKEL----D--LETIG-IPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       197 ~l~~~~~--~~~~~~~~~~l~~~~~~l~------~kr~LlVlDdv~~~~----~--~~~l~-~~l~~~~~gs~IivTTr~  261 (375)
                      ++.....  ........+.+..++..|.      +.++++|+|+++--.    +  +-.+. ..-....|-+-|-+|||-
T Consensus       102 ql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  102 QLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            5532111  1111112222333333443      246899999875321    0  11110 011123455667789996


Q ss_pred             hh-------HHhhhCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          262 QQ-------VCYRMGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       262 ~~-------v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ..       |-.+++...++-+++++-++...++++...
T Consensus       182 d~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  182 DILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             cHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            32       223344444667788888999999998874

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.46  E-value=0.00083  Score=61.87  Aligned_cols=29  Identities=21%  Similarity=0.326  Sum_probs=25.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+..++||||+|+|||.+|+.+++....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC
Confidence            34778999999999999999999998864

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

Probab=97.45  E-value=0.0015  Score=67.19  Aligned_cols=44  Identities=27%  Similarity=0.399  Sum_probs=34.2

Q ss_pred             ccchHHHHHHHHHHHhc-------C--CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          124 FETTESACNQIIEALKK-------D--STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+|.++.++.|...+..       +  ....+.++||+|+|||+||+.++...
T Consensus       456 v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       456 IFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             eeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            46778888888777642       1  12367899999999999999998876

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.45  E-value=0.0016  Score=63.55  Aligned_cols=130  Identities=21%  Similarity=0.218  Sum_probs=72.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      .++-|.++||+|+|||++|+.+.+.....  |     +.++..    +++    ..    +-..+...+.+.+++   +-
T Consensus       467 ppkGVLlyGPPGC~KT~lAkalAne~~~n--F-----lsvkgp----EL~----sk----~vGeSEr~ir~iF~k---AR  524 (693)
T KOG0730|consen  467 PPKGVLLYGPPGCGKTLLAKALANEAGMN--F-----LSVKGP----ELF----SK----YVGESERAIREVFRK---AR  524 (693)
T ss_pred             CCceEEEECCCCcchHHHHHHHhhhhcCC--e-----eeccCH----HHH----HH----hcCchHHHHHHHHHH---Hh
Confidence            47789999999999999999999987743  3     333221    111    11    112222333333333   44


Q ss_pred             CCCcEEEEEeCCCCcc-------------cccccCCCCCCCC--CCcEEEE-EeCChhHHh-hhC---CCCcccCCCCCh
Q 038205          222 KSRKILVILDDVWKEL-------------DLETIGIPVGDRD--NCCKILL-TTRLQQVCY-RMG---CDPRIKLDALDQ  281 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~-------------~~~~l~~~l~~~~--~gs~Iiv-TTr~~~v~~-~~~---~~~~~~l~~L~~  281 (375)
                      +--++++.||+++...             .+..+...+....  ++.-||- |.|...+-. .+.   .+..+.++.-+.
T Consensus       525 ~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~  604 (693)
T KOG0730|consen  525 QVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDL  604 (693)
T ss_pred             hcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccH
Confidence            4567999999876421             0112222222211  2233333 344333321 123   336777877788


Q ss_pred             HHHHHHHHHHcC
Q 038205          282 AEGLDLLRKHAG  293 (375)
Q Consensus       282 ~e~~~Lf~~~~~  293 (375)
                      +.-.++|+.++.
T Consensus       605 ~aR~~Ilk~~~k  616 (693)
T KOG0730|consen  605 EARLEILKQCAK  616 (693)
T ss_pred             HHHHHHHHHHHh
Confidence            888899998885

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.45  E-value=0.00017  Score=62.52  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=20.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+++.|+|++|.||||+.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999999874

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 sliding c

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.45  E-value=0.00094  Score=61.79  Aligned_cols=45  Identities=22%  Similarity=0.217  Sum_probs=34.8

Q ss_pred             ccchHHHHHHHHHHHh-cCCCc-EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALK-KDSTK-MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~-~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++-+.....+..+.. .++.+ .+.++||+|+||||+|..+.+..-
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~   49 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELL   49 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHh
Confidence            3455677777777776 34444 499999999999999999988765

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=0.00043  Score=65.82  Aligned_cols=85  Identities=26%  Similarity=0.339  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHhcCC---------CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh
Q 038205          128 ESACNQIIEALKKDS---------TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL  198 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~---------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  198 (375)
                      ..++++|+++|.++.         ++-|.++||+|.|||-||+.++....+.  |    |......|+      +++-  
T Consensus       313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFd------Em~V--  378 (752)
T KOG0734|consen  313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFD------EMFV--  378 (752)
T ss_pred             HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchh------hhhh--
Confidence            457788888887652         5678999999999999999999988754  2    222222221      1111  


Q ss_pred             CCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCC
Q 038205          199 GWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWK  235 (375)
Q Consensus       199 ~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~  235 (375)
                               ...+.+++.++. +-..-+|+|.+|+++.
T Consensus       379 ---------GvGArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  379 ---------GVGARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             ---------cccHHHHHHHHHHHHhcCCeEEEEechhh
Confidence                     112233444333 4455799999999874

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

Probab=97.44  E-value=0.00023  Score=62.46  Aligned_cols=123  Identities=14%  Similarity=0.121  Sum_probs=72.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-----CCChhHHHHHHHHHhCCCCC-------C-CCH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-----DPSIINVQSELVKSLGWALT-------E-KDE  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~~-------~-~~~  207 (375)
                      .+..+++|+|.+|+||||+++.+..-....  ...+. ....+     .....+...+++..++....       + ...
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L~~pt--~G~i~-f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG  113 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGLEEPT--SGEIL-FEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGG  113 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcCcCCC--CceEE-EcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence            356799999999999999999999887743  22222 22111     22233445666666653211       1 111


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCcc------cccccCCCCCCCCCCcEEEEEeCChhHHhhhCC
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKEL------DLETIGIPVGDRDNCCKILLTTRLQQVCYRMGC  270 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~------~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~~  270 (375)
                      ....-.+.+   ++.-++-++|.|+.-+..      +.-.+...+. ...|...++.|++-.+...+..
T Consensus       114 QrQRi~IAR---ALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         114 QRQRIGIAR---ALALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhhhHHHHH---HHhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhhhcc
Confidence            222233444   788899999999865432      2111211221 2245678889999888776544

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.42  E-value=0.0075  Score=58.30  Aligned_cols=59  Identities=24%  Similarity=0.138  Sum_probs=35.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGW  200 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~  200 (375)
                      ...+++++|++|+||||++..++...........+..+.... .....+-++...+.++.
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGV  314 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGV  314 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCC
Confidence            357999999999999999999998765332222344443322 12233344444555443

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.42  E-value=0.00046  Score=62.77  Aligned_cols=137  Identities=20%  Similarity=0.269  Sum_probs=78.3

Q ss_pred             CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh-hhcCCccEEEEE----EecC---------CCCh
Q 038205          122 SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL-RQNNIFDKVGIA----TVSQ---------DPSI  187 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~f~~~~wv----~~~~---------~~~~  187 (375)
                      -+..+|..+..--+++|.+++...|.+.|.+|+|||-||-+..-.. -.+..|..++..    .+.+         ...+
T Consensus       224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm  303 (436)
T COG1875         224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKM  303 (436)
T ss_pred             hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhc
Confidence            3445677788888888999999999999999999998876543221 122334443211    1222         2234


Q ss_pred             hHHHHHHHHHhCCCC--CCCCHHHHHHHHHH------HhhhcCCC---cEEEEEeCCCCc--ccccccCCCCCCCCCCcE
Q 038205          188 INVQSELVKSLGWAL--TEKDEEDRADRLRL------MFSESKSR---KILVILDDVWKE--LDLETIGIPVGDRDNCCK  254 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~--~~~~~~~~~~~l~~------~~~~l~~k---r~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  254 (375)
                      ....+.|...+..-.  +......+...+..      -+.+.+++   .-++|+|+.++.  .++..+   +...+.|||
T Consensus       304 ~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTi---ltR~G~GsK  380 (436)
T COG1875         304 GPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTI---LTRAGEGSK  380 (436)
T ss_pred             cchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHH---HHhccCCCE
Confidence            445555555543211  11222222222111      12234443   449999999876  344444   445578999


Q ss_pred             EEEEeCC
Q 038205          255 ILLTTRL  261 (375)
Q Consensus       255 IivTTr~  261 (375)
                      |++|.-.
T Consensus       381 IVl~gd~  387 (436)
T COG1875         381 IVLTGDP  387 (436)
T ss_pred             EEEcCCH
Confidence            9988653

>PRK04132 replication factor C small subunit; Provisional

Probab=97.42  E-value=0.0034  Score=64.54  Aligned_cols=153  Identities=13%  Similarity=0.046  Sum_probs=89.1

Q ss_pred             EEc--CCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC-CC
Q 038205          148 LHG--LGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK-SR  224 (375)
Q Consensus       148 I~G--~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~-~k  224 (375)
                      +.|  |.++||||+|..+++..-..+.-..++-++.+...+.. .+++++..+....                 .+. .+
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid-~IR~iIk~~a~~~-----------------~~~~~~  630 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGIN-VIREKVKEFARTK-----------------PIGGAS  630 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHH-HHHHHHHHHHhcC-----------------CcCCCC
Confidence            347  88999999999999886321111234555555433333 3333333221000                 111 24


Q ss_pred             cEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCC-hhHHhhh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCC
Q 038205          225 KILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRL-QQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKT  300 (375)
Q Consensus       225 r~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~  300 (375)
                      .-++|+|+++...  ....+...+......+++|++|.+ ..+.... +....+++.+++.++....+.+.+...... -
T Consensus       631 ~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~-i  709 (846)
T PRK04132        631 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE-L  709 (846)
T ss_pred             CEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC-C
Confidence            5799999998653  444444334332345677766654 3333222 223678999999999998888766422211 1


Q ss_pred             chHHHHHHHHHcCCchhHH
Q 038205          301 MTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       301 ~~~~~~~i~~~~~glPlai  319 (375)
                      ..+....|++.|+|.+-.+
T Consensus       710 ~~e~L~~Ia~~s~GDlR~A  728 (846)
T PRK04132        710 TEEGLQAILYIAEGDMRRA  728 (846)
T ss_pred             CHHHHHHHHHHcCCCHHHH
Confidence            2567789999999988543

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

Probab=97.41  E-value=0.0019  Score=57.53  Aligned_cols=95  Identities=18%  Similarity=0.208  Sum_probs=58.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|.|.+|+|||||++.+++..+.+. -+.++++-+.+.. ...++.+.+...-..       ...+.+. .   
T Consensus        67 g~GQr~~If~~~G~GKTtLa~~i~~~i~~~~-~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          67 AKGGKIGLFGGAGVGKTVLIMELINNIAKAH-GGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             ccCCEEEEecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            3578999999999999999999999887531 2345666666554 445555555442111       1111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCCc
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~~  236 (375)
                        ...-.+.+++...+++.+||++||+...
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence              1223344533333489999999998643

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.0077  Score=56.61  Aligned_cols=166  Identities=16%  Similarity=0.162  Sum_probs=84.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      |--.++||+|.|||++..++++...    |+..- +..+.-.                    ...+    |++++..- .
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~----ydIyd-LeLt~v~--------------------~n~d----Lr~LL~~t-~  285 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN----YDIYD-LELTEVK--------------------LDSD----LRHLLLAT-P  285 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC----CceEE-eeecccc--------------------CcHH----HHHHHHhC-C
Confidence            4568999999999999999999887    33321 1111110                    1111    22221122 3


Q ss_pred             CcEEEEEeCCCCccc-----------cc---------ccCCCC---CCCCCCcEEEE-EeCChhHHh--hhC---CCCcc
Q 038205          224 RKILVILDDVWKELD-----------LE---------TIGIPV---GDRDNCCKILL-TTRLQQVCY--RMG---CDPRI  274 (375)
Q Consensus       224 kr~LlVlDdv~~~~~-----------~~---------~l~~~l---~~~~~gs~Iiv-TTr~~~v~~--~~~---~~~~~  274 (375)
                      .+-+||+.|++..-+           ..         -+...+   ...+.+-|||| ||...+-.+  .+.   -+..+
T Consensus       286 ~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI  365 (457)
T KOG0743|consen  286 NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHI  365 (457)
T ss_pred             CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEE
Confidence            445666666653211           00         011111   11122336655 665433211  122   23567


Q ss_pred             cCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHH-HHhcCC-CH-HHHHHHHHHhhh
Q 038205          275 KLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVG-SALRLR-TA-DEWNVALDKLQN  343 (375)
Q Consensus       275 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~-~~L~~~-~~-~~w~~~l~~l~~  343 (375)
                      .+..=+.+....||.++.+....+    .+..+|.+...|.-+.=..++ .+|.++ +. ...+.+.+.|..
T Consensus       366 ~mgyCtf~~fK~La~nYL~~~~~h----~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~  433 (457)
T KOG0743|consen  366 YMGYCTFEAFKTLASNYLGIEEDH----RLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKGLVEALES  433 (457)
T ss_pred             EcCCCCHHHHHHHHHHhcCCCCCc----chhHHHHHHhhcCccCHHHHHHHHhhccccHHHHHHHHHHHHHh
Confidence            888899999999999999764423    334444444445444333444 444555 32 234444444443

>PRK09183 transposase/IS protein; Provisional

Probab=97.39  E-value=0.00032  Score=62.68  Aligned_cols=28  Identities=36%  Similarity=0.440  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+.|+|++|+|||+||..+++....
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~  128 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVR  128 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            3467889999999999999999876543

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.39  E-value=0.0014  Score=66.31  Aligned_cols=148  Identities=18%  Similarity=0.200  Sum_probs=78.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      .+-|.++|++|+|||++++.+.+.....  |     +.++..    .+. .+.       ...........+..   ...
T Consensus       185 ~~gill~G~~G~GKt~~~~~~a~~~~~~--f-----~~is~~----~~~-~~~-------~g~~~~~~~~~f~~---a~~  242 (644)
T PRK10733        185 PKGVLMVGPPGTGKTLLAKAIAGEAKVP--F-----FTISGS----DFV-EMF-------VGVGASRVRDMFEQ---AKK  242 (644)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHcCCC--E-----EEEehH----HhH-Hhh-------hcccHHHHHHHHHH---HHh
Confidence            3458999999999999999998876532  2     222211    111 010       01111222223333   344


Q ss_pred             CCcEEEEEeCCCCcc----------------cccccCCCCCC--CCCCcEEEEEeCChhHHhh--h---CCCCcccCCCC
Q 038205          223 SRKILVILDDVWKEL----------------DLETIGIPVGD--RDNCCKILLTTRLQQVCYR--M---GCDPRIKLDAL  279 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~----------------~~~~l~~~l~~--~~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L  279 (375)
                      ..+++|++|+++...                .+..+...+..  ...+.-+|.||...+....  .   .....+.+...
T Consensus       243 ~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~P  322 (644)
T PRK10733        243 AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLP  322 (644)
T ss_pred             cCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCC
Confidence            578999999986431                01111111111  1234455567766544221  1   12366788888


Q ss_pred             ChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC
Q 038205          280 DQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG  314 (375)
Q Consensus       280 ~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g  314 (375)
                      +.++-.++++.+.......++..  ...+++.+.|
T Consensus       323 d~~~R~~Il~~~~~~~~l~~~~d--~~~la~~t~G  355 (644)
T PRK10733        323 DVRGREQILKVHMRRVPLAPDID--AAIIARGTPG  355 (644)
T ss_pred             CHHHHHHHHHHHhhcCCCCCcCC--HHHHHhhCCC
Confidence            88888899888775322122211  2345555555

>PRK10867 signal recognition particle protein; Provisional

Probab=97.37  E-value=0.0082  Score=57.41  Aligned_cols=28  Identities=32%  Similarity=0.477  Sum_probs=23.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+|.++|++|+||||++..++.....
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~  126 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKK  126 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3679999999999999988887765543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.35  E-value=0.00036  Score=63.77  Aligned_cols=116  Identities=18%  Similarity=0.188  Sum_probs=64.7

Q ss_pred             chHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC
Q 038205          126 TTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA  201 (375)
Q Consensus       126 gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  201 (375)
                      ++........+++..    ...+-+.|+|+.|+|||.||..+++.....+ + .+.+++++      .++..+...... 
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g-~-~v~~~~~~------~l~~~lk~~~~~-  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKG-V-SSTLLHFP------EFIRELKNSISD-  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcC-C-CEEEEEHH------HHHHHHHHHHhc-
Confidence            344445555555542    1346789999999999999999999987432 2 34455443      455555544421 


Q ss_pred             CCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccc--cCCCC-CCC-CCCcEEEEEeCC
Q 038205          202 LTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLET--IGIPV-GDR-DNCCKILLTTRL  261 (375)
Q Consensus       202 ~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~--l~~~l-~~~-~~gs~IivTTr~  261 (375)
                         .+.   ...+.    .+ .+--||||||+...  ..|..  +...+ ... ..+..+|+||..
T Consensus       206 ---~~~---~~~l~----~l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        206 ---GSV---KEKID----AV-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             ---CcH---HHHHH----Hh-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence               111   12222    22 24559999999643  34532  32222 221 234567777753

>cd00267 ABC_ATPase 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

Probab=97.35  E-value=0.00057  Score=56.15  Aligned_cols=119  Identities=17%  Similarity=0.178  Sum_probs=62.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      +..+++|+|++|+|||||++.+......   ....+++.........  .......++....-...+...-.+..   .+
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~~---~~G~i~~~~~~~~~~~--~~~~~~~i~~~~qlS~G~~~r~~l~~---~l   95 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLKP---TSGEILIDGKDIAKLP--LEELRRRIGYVPQLSGGQRQRVALAR---AL   95 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC---CccEEEECCEEcccCC--HHHHHhceEEEeeCCHHHHHHHHHHH---HH
Confidence            4579999999999999999999887643   2333333221111100  01111111111111112222233344   66


Q ss_pred             CCCcEEEEEeCCCCccc---ccccCCCCCC-CCCCcEEEEEeCChhHHhhh
Q 038205          222 KSRKILVILDDVWKELD---LETIGIPVGD-RDNCCKILLTTRLQQVCYRM  268 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~~---~~~l~~~l~~-~~~gs~IivTTr~~~v~~~~  268 (375)
                      ...+-++++|+....-+   ...+...+.. ...+..++++|++.......
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~  146 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA  146 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence            66788999998864321   1112111111 11256899999987765543

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.

>PRK06526 transposase; Provisional

Probab=97.35  E-value=0.00015  Score=64.49  Aligned_cols=28  Identities=36%  Similarity=0.317  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...-+.++|++|+|||+||..+......
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~~  124 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQ  124 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHHH
Confidence            3457899999999999999999887654

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.35  E-value=0.0022  Score=56.25  Aligned_cols=211  Identities=15%  Similarity=0.149  Sum_probs=113.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh----cCCccEEEEEEecCC---------
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ----NNIFDKVGIATVSQD---------  184 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~---------  184 (375)
                      |..+....++++....+.+....++.+...++||+|.||-|.+..+.+..-.    +-..+...|.+-+..         
T Consensus         9 pksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS   88 (351)
T KOG2035|consen    9 PKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSS   88 (351)
T ss_pred             cchhhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecc
Confidence            3444556677777777777666667789999999999999977666555421    111223334432221         


Q ss_pred             -C-----------ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcE-EEEEeCCCCc--ccccccCCCCCCC
Q 038205          185 -P-----------SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKI-LVILDDVWKE--LDLETIGIPVGDR  249 (375)
Q Consensus       185 -~-----------~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~-LlVlDdv~~~--~~~~~l~~~l~~~  249 (375)
                       .           .-.-+.+++++.+.....          +.    .-..+.| ++|+-.+++.  +.-..+.......
T Consensus        89 ~yHlEitPSDaG~~DRvViQellKevAQt~q----------ie----~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkY  154 (351)
T KOG2035|consen   89 NYHLEITPSDAGNYDRVVIQELLKEVAQTQQ----------IE----TQGQRPFKVVVINEADELTRDAQHALRRTMEKY  154 (351)
T ss_pred             cceEEeChhhcCcccHHHHHHHHHHHHhhcc----------hh----hccccceEEEEEechHhhhHHHHHHHHHHHHHH
Confidence             1           112233444443321100          00    1112334 5666666542  1112222222223


Q ss_pred             CCCcEEEEEeCC--hhHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHHHHHh
Q 038205          250 DNCCKILLTTRL--QQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAVGSAL  326 (375)
Q Consensus       250 ~~gs~IivTTr~--~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i~~~L  326 (375)
                      .+.+|+|+...+  .-+...-+.--.+++...+++|....+++.+..+...-. .+++.+|+++++|.-- |+-++ -.+
T Consensus       155 s~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp-~~~l~rIa~kS~~nLRrAllml-E~~  232 (351)
T KOG2035|consen  155 SSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP-KELLKRIAEKSNRNLRRALLML-EAV  232 (351)
T ss_pred             hcCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc-HHHHHHHHHHhcccHHHHHHHH-HHH
Confidence            445677765332  222222222246789999999999999988763332211 6889999999987643 33332 222


Q ss_pred             c--C--------C-CHHHHHHHHHHhhhc
Q 038205          327 R--L--------R-TADEWNVALDKLQNA  344 (375)
Q Consensus       327 ~--~--------~-~~~~w~~~l~~l~~~  344 (375)
                      +  +        . ..-+|+-+..++...
T Consensus       233 ~~~n~~~~a~~~~i~~~dWe~~i~e~a~~  261 (351)
T KOG2035|consen  233 RVNNEPFTANSQVIPKPDWEIYIQEIARV  261 (351)
T ss_pred             HhccccccccCCCCCCccHHHHHHHHHHH
Confidence            2  1        1 345798877766553

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.34  E-value=0.00034  Score=64.56  Aligned_cols=47  Identities=23%  Similarity=0.368  Sum_probs=40.2

Q ss_pred             CccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          123 SFETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .++|.++.++++.+++..      ...+++.++||+|+||||||+.+.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            678999999999998843      23578999999999999999999888764

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

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

Probab=97.34  E-value=0.00023  Score=61.72  Aligned_cols=28  Identities=25%  Similarity=0.527  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.+..-.+
T Consensus        27 ~~GEfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          27 EKGEFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4567999999999999999999976554

>TIGR00959 ffh signal recognition particle protein

Probab=97.34  E-value=0.0067  Score=57.94  Aligned_cols=27  Identities=30%  Similarity=0.401  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.++.++|++|+||||++..++....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            356899999999999999888877654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK06696 uridine kinase; Validated

Probab=97.33  E-value=0.00035  Score=61.04  Aligned_cols=44  Identities=18%  Similarity=0.342  Sum_probs=35.7

Q ss_pred             chHHHHHHHHHHHh---cCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          126 TTESACNQIIEALK---KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       126 gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .|.+.+++|.+.+.   .+.+.+|+|.|++|+||||||+.+......
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35667777777764   345779999999999999999999988764

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=97.33  E-value=0.00021  Score=67.57  Aligned_cols=26  Identities=31%  Similarity=0.527  Sum_probs=22.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....++|+||+|+||||||+.+..-.
T Consensus       361 ~G~~lgIIGPSgSGKSTLaR~lvG~w  386 (580)
T COG4618         361 AGEALGIIGPSGSGKSTLARLLVGIW  386 (580)
T ss_pred             CCceEEEECCCCccHHHHHHHHHccc
Confidence            35689999999999999999986544

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.33  E-value=0.00071  Score=57.79  Aligned_cols=55  Identities=22%  Similarity=0.236  Sum_probs=35.9

Q ss_pred             hhhcCCCcEEEEEeCCCCcccccccCC---CCC-CCCCCcEEEEEeCChhHHhhhCCCC
Q 038205          218 FSESKSRKILVILDDVWKELDLETIGI---PVG-DRDNCCKILLTTRLQQVCYRMGCDP  272 (375)
Q Consensus       218 ~~~l~~kr~LlVlDdv~~~~~~~~l~~---~l~-~~~~gs~IivTTr~~~v~~~~~~~~  272 (375)
                      +|.+--++-+.|||+.++--+.+.+..   .+. -..+|+-+++.|+.+.++....++.
T Consensus       156 lQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~  214 (251)
T COG0396         156 LQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDK  214 (251)
T ss_pred             HHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCE
Confidence            335555677999999987655444321   111 1245778999999999988776553

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.33  E-value=0.0016  Score=57.89  Aligned_cols=76  Identities=30%  Similarity=0.274  Sum_probs=46.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      ...-+.++|++|+|||.||..+.+... +.. ..+.+++      ..+++.++......    ..   ....+..   .+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g-~sv~f~~------~~el~~~Lk~~~~~----~~---~~~~l~~---~l  165 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAG-ISVLFIT------APDLLSKLKAAFDE----GR---LEEKLLR---EL  165 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcC-CeEEEEE------HHHHHHHHHHHHhc----Cc---hHHHHHH---Hh
Confidence            566889999999999999999999988 322 2344553      34555555554432    11   1111111   11


Q ss_pred             CCCcEEEEEeCCCCc
Q 038205          222 KSRKILVILDDVWKE  236 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~  236 (375)
                       .+-=||||||+-..
T Consensus       166 -~~~dlLIiDDlG~~  179 (254)
T COG1484         166 -KKVDLLIIDDIGYE  179 (254)
T ss_pred             -hcCCEEEEecccCc
Confidence             23449999998653

>PRK04296 thymidine kinase; Provisional

Probab=97.32  E-value=0.00018  Score=61.16  Aligned_cols=110  Identities=12%  Similarity=0.026  Sum_probs=59.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCC---CCHHHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTE---KDEEDRADRLRLMFSE  220 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~l~~~~~~  220 (375)
                      .++.|+|+.|.||||++..+..+....+  ..+..+.  ..++.......++++++.....   ....+....+.+    
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g--~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~----   74 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERG--MKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE----   74 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcC--CeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh----
Confidence            4788999999999999999888776432  2233331  1112222233455555533322   112222222221    


Q ss_pred             cCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChh
Q 038205          221 SKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQ  263 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~  263 (375)
                      ..++.-+||+|++.-.  ++..++...+  ...|..||+|.++.+
T Consensus        75 ~~~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         75 EGEKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             hCCCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            2335569999998542  2233222221  245789999998743

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.32  E-value=0.00035  Score=59.84  Aligned_cols=25  Identities=20%  Similarity=0.323  Sum_probs=22.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .++++|.|++|+|||||++.+....
T Consensus        25 g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHH
Confidence            3799999999999999999997654

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

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.32  E-value=0.0036  Score=65.56  Aligned_cols=46  Identities=26%  Similarity=0.329  Sum_probs=36.5

Q ss_pred             CccchHHHHHHHHHHHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.+..++.+...+...         ....+.++|++|+|||++|+.+.....
T Consensus       566 ~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~  620 (852)
T TIGR03346       566 RVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLF  620 (852)
T ss_pred             ccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            4678888888888887431         134688999999999999999998754

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.

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

Probab=97.31  E-value=0.00037  Score=58.63  Aligned_cols=28  Identities=29%  Similarity=0.491  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (178)
T cd03229          24 EAGEIVALLGPSGSGKSTLLRCIAGLEE   51 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3467999999999999999999987654

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.30  E-value=0.0015  Score=68.27  Aligned_cols=46  Identities=24%  Similarity=0.291  Sum_probs=35.6

Q ss_pred             CccchHHHHHHHHHHHhc-------CC--CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK-------DS--TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~-------~~--~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.+..++.+...+..       ++  ...+.++|++|+|||++|+.+.+..-
T Consensus       569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~  623 (857)
T PRK10865        569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF  623 (857)
T ss_pred             eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            466888888888877642       11  24788999999999999999987653

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.29  E-value=0.00051  Score=61.48  Aligned_cols=126  Identities=15%  Similarity=0.125  Sum_probs=66.4

Q ss_pred             HHHHHHHh-cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCC--------CC
Q 038205          132 NQIIEALK-KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGW--------AL  202 (375)
Q Consensus       132 ~~l~~~l~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~--------~~  202 (375)
                      +.++..+. ..+..-++|+|++|+|||||++.+.......   ...+++.-.. -...+...++......        ..
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~~---~G~i~~~g~~-v~~~d~~~ei~~~~~~~~q~~~~~r~  174 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILSTG---ISQLGLRGKK-VGIVDERSEIAGCVNGVPQHDVGIRT  174 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCCC---CceEEECCEE-eecchhHHHHHHHhcccccccccccc
Confidence            33444443 3445689999999999999999999887642   1222221100 0001111233222211        00


Q ss_pred             CCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          203 TEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       203 ~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      +-.+.......+..+  .....+-++++|++...+.+..+...+   ..|..+|+||++..+..
T Consensus       175 ~v~~~~~k~~~~~~~--i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~~~  233 (270)
T TIGR02858       175 DVLDGCPKAEGMMML--IRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDVED  233 (270)
T ss_pred             cccccchHHHHHHHH--HHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHHHH
Confidence            000001111122221  222478899999997766555554333   24788999999876644

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.29  E-value=0.00091  Score=59.57  Aligned_cols=28  Identities=32%  Similarity=0.470  Sum_probs=24.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus        28 ~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~   55 (251)
T PRK09544         28 KPGKILTLLGPNGAGKSTLVRVVLGLVA   55 (251)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999988754

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.27  E-value=0.0016  Score=56.12  Aligned_cols=28  Identities=29%  Similarity=0.383  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|.|++|+|||||++.+.....
T Consensus        32 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~   59 (207)
T cd03369          32 KAGEKIGIVGRTGAGKSTLILALFRFLE   59 (207)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            3567999999999999999999976543

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting 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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.26  E-value=0.0018  Score=55.86  Aligned_cols=89  Identities=13%  Similarity=0.097  Sum_probs=51.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh-CC---C---CCCCCHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL-GW---A---LTEKDEEDRADRL  214 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l-~~---~---~~~~~~~~~~~~l  214 (375)
                      ...++.|+|++|+|||+++.++.......  -..++|++... ++...+.+ +.... ..   .   ....+..+....+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~   86 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGVAI   86 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHHHH
Confidence            36799999999999999999987766532  45678888765 44444333 33321 00   0   0111222332223


Q ss_pred             HHHhhhcCC-CcEEEEEeCCC
Q 038205          215 RLMFSESKS-RKILVILDDVW  234 (375)
Q Consensus       215 ~~~~~~l~~-kr~LlVlDdv~  234 (375)
                      ..+...+.. +.-++|+|.+.
T Consensus        87 ~~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        87 QKTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHHhhcCccEEEEeCcH
Confidence            332224433 45699999875

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

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.26  E-value=0.001  Score=66.12  Aligned_cols=29  Identities=28%  Similarity=0.385  Sum_probs=25.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~~p  387 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLLDP  387 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            46789999999999999999999776543

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.26  E-value=0.0011  Score=55.86  Aligned_cols=27  Identities=33%  Similarity=0.439  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLRP   51 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999999999988754

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.25  E-value=0.0028  Score=59.16  Aligned_cols=28  Identities=32%  Similarity=0.372  Sum_probs=24.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+++|+++|++|+||||++..++.....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~  267 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHG  267 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3579999999999999999999877653

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.0033  Score=61.87  Aligned_cols=130  Identities=20%  Similarity=0.178  Sum_probs=75.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      ....+.++||+|.|||.||+.+++..+.  .|-.+.+-.             +..    .+-..+.......+..   +.
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~--~fi~v~~~~-------------l~s----k~vGesek~ir~~F~~---A~  332 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRS--RFISVKGSE-------------LLS----KWVGESEKNIRELFEK---AR  332 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCC--eEEEeeCHH-------------Hhc----cccchHHHHHHHHHHH---HH
Confidence            4568999999999999999999996653  233222110             100    1111222333333333   55


Q ss_pred             CCCcEEEEEeCCCCccccc-------------ccCCCCC--CCCCCcEEEEEeCChhHHhh---h--CCCCcccCCCCCh
Q 038205          222 KSRKILVILDDVWKELDLE-------------TIGIPVG--DRDNCCKILLTTRLQQVCYR---M--GCDPRIKLDALDQ  281 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~~~~~-------------~l~~~l~--~~~~gs~IivTTr~~~v~~~---~--~~~~~~~l~~L~~  281 (375)
                      +..+++|.+|+++....+.             .+...+.  ....+..||-||........   .  .-...+.+.+-+.
T Consensus       333 ~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~  412 (494)
T COG0464         333 KLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDL  412 (494)
T ss_pred             cCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCH
Confidence            6789999999987532111             1111121  12233445555554433221   1  2236788899999


Q ss_pred             HHHHHHHHHHcC
Q 038205          282 AEGLDLLRKHAG  293 (375)
Q Consensus       282 ~e~~~Lf~~~~~  293 (375)
                      ++..+.|+.+..
T Consensus       413 ~~r~~i~~~~~~  424 (494)
T COG0464         413 EERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHHhc
Confidence            999999999886

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.0031  Score=54.95  Aligned_cols=86  Identities=27%  Similarity=0.334  Sum_probs=53.9

Q ss_pred             chHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          126 TTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       126 gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |-.+.+++|.+...             -+.+.-|.++||+|.|||-+|+.|+|+..  ..|-.++             -.
T Consensus       181 gckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtd--acfirvi-------------gs  245 (435)
T KOG0729|consen  181 GCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTD--ACFIRVI-------------GS  245 (435)
T ss_pred             chHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccC--ceEEeeh-------------hH
Confidence            44566666665432             23467789999999999999999999766  3343332             11


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVW  234 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~  234 (375)
                      ++.+..        ..+.+.+++++++-- ..|-|++.||+++
T Consensus       246 elvqky--------vgegarmvrelf~martkkaciiffdeid  280 (435)
T KOG0729|consen  246 ELVQKY--------VGEGARMVRELFEMARTKKACIIFFDEID  280 (435)
T ss_pred             HHHHHH--------hhhhHHHHHHHHHHhcccceEEEEeeccc
Confidence            222221        123345556655544 4578999999875

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.23  E-value=0.024  Score=53.44  Aligned_cols=88  Identities=19%  Similarity=0.157  Sum_probs=49.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC--CccEEEEEEecCC-CChhHHHHHHHHHhCCCCCCC-CHHHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN--IFDKVGIATVSQD-PSIINVQSELVKSLGWALTEK-DEEDRADRLRLM  217 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~l~~~  217 (375)
                      .+++|.++|+.|+||||.+..++.......  .-..+..++.... .....-++..++.++.+.... ........+.  
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~--  250 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEIT--  250 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHH--
Confidence            357999999999999999999887765321  1123444444321 122233555566565543322 2233333232  


Q ss_pred             hhhcCCCcEEEEEeCCC
Q 038205          218 FSESKSRKILVILDDVW  234 (375)
Q Consensus       218 ~~~l~~kr~LlVlDdv~  234 (375)
                        .+ .+.-++++|...
T Consensus       251 --~~-~~~DlVLIDTaG  264 (388)
T PRK12723        251 --QS-KDFDLVLVDTIG  264 (388)
T ss_pred             --Hh-CCCCEEEEcCCC
Confidence              33 345588888764

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=97.23  E-value=0.00016  Score=74.37  Aligned_cols=178  Identities=18%  Similarity=0.214  Sum_probs=91.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh--hcC------------CccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR--QNN------------IFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~------------~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  207 (375)
                      +.+++.|.||++.||||+.+.+.-..-  ..+            .|+. ++..++...++..-+..+             
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~-i~~~ig~~~si~~~lStf-------------  391 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKE-IFADIGDEQSIEQSLSTF-------------  391 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccce-EEEecCCccchhhchhHH-------------
Confidence            356889999999999999998854321  111            1111 222222222211111111             


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc---cccc----CCCCCCCCCCcEEEEEeCChhHHhhhCCCCcc---cCC
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKELD---LETI----GIPVGDRDNCCKILLTTRLQQVCYRMGCDPRI---KLD  277 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~---~~~l----~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~~---~l~  277 (375)
                      ......+..++..+ ..+-|+++|++....+   -..+    ...+.  ..|+.+|+||+..++.........+   .+.
T Consensus       392 S~~m~~~~~Il~~~-~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~  468 (782)
T PRK00409        392 SGHMTNIVRILEKA-DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVE  468 (782)
T ss_pred             HHHHHHHHHHHHhC-CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEE
Confidence            11112222322234 5777999999875422   1112    11221  2468999999998876654332111   111


Q ss_pred             CCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhhh
Q 038205          278 ALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQN  343 (375)
Q Consensus       278 ~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~l~~  343 (375)
                       ++. +... +...+....  +. ...|-.|++++ |+|-.+..-|.-+........+.++..|..
T Consensus       469 -~d~-~~l~-~~Ykl~~G~--~g-~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l~~  527 (782)
T PRK00409        469 -FDE-ETLR-PTYRLLIGI--PG-KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASLEE  527 (782)
T ss_pred             -Eec-CcCc-EEEEEeeCC--CC-CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence             111 1000 111111111  11 34566777777 899988888877766555667777776655

>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=97.23  E-value=0.002  Score=56.89  Aligned_cols=28  Identities=32%  Similarity=0.539  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (237)
T cd03252          26 KPGEVVGIVGRSGSGKSTLTKLIQRFYV   53 (237)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            3567999999999999999999987653

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.22  E-value=0.0018  Score=63.47  Aligned_cols=131  Identities=19%  Similarity=0.203  Sum_probs=69.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-C-----CccEEEEEEecCCC-----Ch------------hHHHHHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-N-----IFDKVGIATVSQDP-----SI------------INVQSELVKS  197 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~-----~f~~~~wv~~~~~~-----~~------------~~~~~~i~~~  197 (375)
                      +....|+|+|++|+|||||.+.+....... +     .--.+.+.......     ++            ..-.+..+.+
T Consensus       346 ~~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~  425 (530)
T COG0488         346 DRGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGR  425 (530)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHH
Confidence            356799999999999999999996655432 1     11112222221110     11            2333344444


Q ss_pred             hCCCCCC-------CCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCcccc---cccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          198 LGWALTE-------KDE-EDRADRLRLMFSESKSRKILVILDDVWKELDL---ETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       198 l~~~~~~-------~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~---~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      ++...+.       .+. +...-.+..   .+-..+-+||||+..+.-+.   +.+...+...  ...||+.|++.....
T Consensus       426 f~F~~~~~~~~v~~LSGGEk~Rl~La~---ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f--~Gtvl~VSHDr~Fl~  500 (530)
T COG0488         426 FGFTGEDQEKPVGVLSGGEKARLLLAK---LLLQPPNLLLLDEPTNHLDIESLEALEEALLDF--EGTVLLVSHDRYFLD  500 (530)
T ss_pred             cCCChHHHhCchhhcCHhHHHHHHHHH---HhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC--CCeEEEEeCCHHHHH
Confidence            4322111       111 222233333   55668889999988765332   2232233222  247999999988877


Q ss_pred             hhCCCCcccCC
Q 038205          267 RMGCDPRIKLD  277 (375)
Q Consensus       267 ~~~~~~~~~l~  277 (375)
                      .... .++.+.
T Consensus       501 ~va~-~i~~~~  510 (530)
T COG0488         501 RVAT-RIWLVE  510 (530)
T ss_pred             hhcc-eEEEEc
Confidence            6543 344444

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.004  Score=62.98  Aligned_cols=158  Identities=15%  Similarity=0.184  Sum_probs=87.7

Q ss_pred             CCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCc----cEEEEEEecCCCChhHHHHHH
Q 038205          119 RFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF----DKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      ..+.+.+||++++.+++..|....-.--.++|.+|+|||+++.-++.+.-..+--    +..++. .           ++
T Consensus       167 gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s-L-----------D~  234 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS-L-----------DL  234 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE-e-----------cH
Confidence            3457789999999999999965432233568999999999999998887643211    111111 0           01


Q ss_pred             HHHh-CCCCCCCCHHHHHHHHHHHhhhcC-CCcEEEEEeCCCCcc--------cccccCCCCCCCCCC--cEEEEEeCCh
Q 038205          195 VKSL-GWALTEKDEEDRADRLRLMFSESK-SRKILVILDDVWKEL--------DLETIGIPVGDRDNC--CKILLTTRLQ  262 (375)
Q Consensus       195 ~~~l-~~~~~~~~~~~~~~~l~~~~~~l~-~kr~LlVlDdv~~~~--------~~~~l~~~l~~~~~g--s~IivTTr~~  262 (375)
                      ..-+ |.....    +..+.+..++..++ .++.+|++|+++..-        ..+.-...-|.-..|  -.|-.||-++
T Consensus       235 g~LvAGakyRG----eFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~E  310 (786)
T COG0542         235 GSLVAGAKYRG----EFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDE  310 (786)
T ss_pred             HHHhccccccC----cHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHH
Confidence            1111 111111    22223333222443 358999999986531        133321111222223  3444566543


Q ss_pred             hH------HhhhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          263 QV------CYRMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       263 ~v------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .-      +........+.+...+.+++..+++...
T Consensus       311 YRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         311 YRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            21      1122344678899999999999987543

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.22  E-value=0.024  Score=54.04  Aligned_cols=27  Identities=26%  Similarity=0.374  Sum_probs=23.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+|.++|++|+||||++..++...+.
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~  126 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQR  126 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            579999999999999999998876653

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.21  E-value=0.00056  Score=58.30  Aligned_cols=26  Identities=31%  Similarity=0.503  Sum_probs=23.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....+++|+|++|+|||||++.+...
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          31 KPGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34679999999999999999999874

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.21  E-value=0.024  Score=57.69  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++++++|++|+||||++..+.....
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~  210 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCV  210 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHH
Confidence            57999999999999999999887664

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.19  E-value=0.0032  Score=55.50  Aligned_cols=89  Identities=21%  Similarity=0.277  Sum_probs=50.8

Q ss_pred             HHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCH
Q 038205          130 ACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDE  207 (375)
Q Consensus       130 ~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  207 (375)
                      .+..+.++...  .....+.++|++|+|||+|+..+++.....+  ..+++++      ..+++..+-....  ....+.
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g--~~v~~it------~~~l~~~l~~~~~--~~~~~~  153 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG--KSVLIIT------VADIMSAMKDTFS--NSETSE  153 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEE------HHHHHHHHHHHHh--hccccH
Confidence            44455554432  2235789999999999999999999876532  3445553      3444444443331  011111


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCc
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~  236 (375)
                      ..    +.+   .+. +.-||||||+...
T Consensus       154 ~~----~l~---~l~-~~dlLvIDDig~~  174 (244)
T PRK07952        154 EQ----LLN---DLS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             HH----HHH---Hhc-cCCEEEEeCCCCC
Confidence            11    212   333 3448999999654

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.18  E-value=0.002  Score=63.17  Aligned_cols=28  Identities=36%  Similarity=0.612  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....|+|+|.+|+|||||.+.+......
T Consensus        28 ~G~riGLvG~NGaGKSTLLkilaG~~~~   55 (530)
T COG0488          28 PGERIGLVGRNGAGKSTLLKILAGELEP   55 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCcC
Confidence            4679999999999999999999987753

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.17  E-value=0.038  Score=50.88  Aligned_cols=29  Identities=24%  Similarity=0.373  Sum_probs=25.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+.+++++|++|+||||++..++......
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46799999999999999999999887743

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.17  E-value=0.0031  Score=57.87  Aligned_cols=92  Identities=15%  Similarity=0.122  Sum_probs=56.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++-|+|++|+|||+|+.+++-.....    ..-..++|++....+++..+. +++++++....          ..+.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~~  173 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYTS  173 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCCH
Confidence            46789999999999999998876433211    112468899888777776654 45666654321          1123


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVW  234 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~  234 (375)
                      +...+.+..+...+. .+--|+|+|.+.
T Consensus       174 e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       174 EHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            333334443332333 345589999875

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.17  E-value=0.0018  Score=54.35  Aligned_cols=36  Identities=31%  Similarity=0.445  Sum_probs=28.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEE
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIA  179 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  179 (375)
                      .+.+|.+.|++|+||||+++.++......  +...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~--~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK--YSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEE
Confidence            45699999999999999999999988642  4444444

>PRK12377 putative replication protein; Provisional

Probab=97.17  E-value=0.0015  Score=57.81  Aligned_cols=74  Identities=30%  Similarity=0.324  Sum_probs=45.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...+.++|++|+|||+||..+++.....  ...+++++++      +++..+-.....   .....   ..+.    .+ 
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~~------~l~~~l~~~~~~---~~~~~---~~l~----~l-  161 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTVP------DVMSRLHESYDN---GQSGE---KFLQ----EL-  161 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEHH------HHHHHHHHHHhc---cchHH---HHHH----Hh-
Confidence            4678999999999999999999988743  2334555443      444444433211   01111   1122    23 


Q ss_pred             CCcEEEEEeCCCC
Q 038205          223 SRKILVILDDVWK  235 (375)
Q Consensus       223 ~kr~LlVlDdv~~  235 (375)
                      .+--||||||+..
T Consensus       162 ~~~dLLiIDDlg~  174 (248)
T PRK12377        162 CKVDLLVLDEIGI  174 (248)
T ss_pred             cCCCEEEEcCCCC
Confidence            3556999999953

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

Probab=97.16  E-value=0.0045  Score=54.08  Aligned_cols=93  Identities=17%  Similarity=0.145  Sum_probs=54.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhCCC----------CCCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLGWA----------LTEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~----------~~~~~~  207 (375)
                      ...++.|+|++|+|||+|+.+++.......    .=..++|+.....++...+ .++....+..          ....+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERL-VQLAVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHH-HHHHHHhccchhhhhccEEEEeCCCH
Confidence            467999999999999999999876653221    1145678877666554433 3333332211          011233


Q ss_pred             HHHHHHHHHHhhhc-CCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      ++....+..+.... ..+.-|+|+|.+..
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            44444555432222 23555999998753

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.

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=97.16  E-value=0.0013  Score=55.11  Aligned_cols=32  Identities=31%  Similarity=0.562  Sum_probs=27.4

Q ss_pred             hcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          139 KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       139 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...+..+++|.|++|.||||+.+.++.-....
T Consensus        24 ~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~   55 (245)
T COG4555          24 EAEEGEITGLLGENGAGKTTLLRMIATLLIPD   55 (245)
T ss_pred             EeccceEEEEEcCCCCCchhHHHHHHHhccCC
Confidence            34567899999999999999999999887653

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

Probab=97.16  E-value=0.0008  Score=56.36  Aligned_cols=24  Identities=38%  Similarity=0.487  Sum_probs=21.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999999854

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.16  E-value=0.002  Score=58.63  Aligned_cols=28  Identities=39%  Similarity=0.627  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...++++.|++|+|||||.+.+....+.
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl~~p   57 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGLLKP   57 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            4579999999999999999999887764

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.019  Score=56.82  Aligned_cols=151  Identities=17%  Similarity=0.169  Sum_probs=82.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      .-|.++|++|+|||.||..+......+       ++++..+    +++.+.   +|     .+.+...+.+.+   +-..
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGP----ElL~Ky---IG-----aSEq~vR~lF~r---A~~a  759 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGP----ELLSKY---IG-----ASEQNVRDLFER---AQSA  759 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCH----HHHHHH---hc-----ccHHHHHHHHHH---hhcc
Confidence            457899999999999999998876643       4555432    222222   22     223334444444   5556


Q ss_pred             CcEEEEEeCCCCcc-------------cccccCCCCCC--CCCCcEEEEEeCChhHHhh--hCC---CCcccCCCCChHH
Q 038205          224 RKILVILDDVWKEL-------------DLETIGIPVGD--RDNCCKILLTTRLQQVCYR--MGC---DPRIKLDALDQAE  283 (375)
Q Consensus       224 kr~LlVlDdv~~~~-------------~~~~l~~~l~~--~~~gs~IivTTr~~~v~~~--~~~---~~~~~l~~L~~~e  283 (375)
                      ++|+|.||++++..             ...++...+..  +-.|..|+-.|...++.+.  +.+   ++.+.-+.-++.+
T Consensus       760 ~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~e  839 (952)
T KOG0735|consen  760 KPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPE  839 (952)
T ss_pred             CCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHH
Confidence            99999999987531             12223222321  2356667754443333211  122   1333334456677


Q ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          284 GLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       284 ~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      -.++|......-.  .+..-..+.++.+.+|.--|
T Consensus       840 Rl~il~~ls~s~~--~~~~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  840 RLEILQVLSNSLL--KDTDVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHhhccC--CccccchHHHhhhcCCCchh
Confidence            7888877653111  01122245667777776554

>PTZ00035 Rad51 protein; Provisional

Probab=97.15  E-value=0.0064  Score=56.44  Aligned_cols=93  Identities=16%  Similarity=0.088  Sum_probs=54.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh---c-CCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ---N-NIFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~-~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++.|+|++|+|||||+..++-....   . ..-..++|+.....++... +.+++++++....          ..+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCCChHhHhhceEEEccCCH
Confidence            4678999999999999999988754431   0 1223566887766665555 4455555543211          1222


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~~  235 (375)
                      ++....+..+...+. .+--|||+|.+..
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            333444433322333 3456999998753

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.14  E-value=0.0011  Score=56.60  Aligned_cols=27  Identities=22%  Similarity=0.425  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+++|.|++|+|||||.+.+....
T Consensus        33 ~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          33 KPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998876

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.14  E-value=0.0031  Score=55.15  Aligned_cols=89  Identities=18%  Similarity=0.145  Sum_probs=51.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH----hCC---CCCCCCHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS----LGW---ALTEKDEEDRADRL  214 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~----l~~---~~~~~~~~~~~~~l  214 (375)
                      ...++.|+|++|+|||+++.+++......  -..++|++.. .++...+ .++...    +..   -....+..+....+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   97 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERF-KQIAGEDFEELLSNIIIFEPSSFEEQSEAI   97 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHH-HHHHhhChHhHhhCeEEEeCCCHHHHHHHH
Confidence            46799999999999999999998766533  3567888776 4444332 233322    000   00112222333333


Q ss_pred             HHHhhhcCCCcEEEEEeCCC
Q 038205          215 RLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       215 ~~~~~~l~~kr~LlVlDdv~  234 (375)
                      ..+...+..+.-++|+|.+.
T Consensus        98 ~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         98 RKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHhcccEEEEeCcH
Confidence            33322333566799999874

>cd01394 radB RadB

Probab=97.13  E-value=0.0043  Score=53.94  Aligned_cols=89  Identities=15%  Similarity=0.112  Sum_probs=49.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh----CCC---CCCCCHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL----GWA---LTEKDEEDRADRL  214 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l----~~~---~~~~~~~~~~~~l  214 (375)
                      ...++.|.|++|+||||++.+++......  -..++|++....+.  .-++++....    ...   ....+..+....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRAI   93 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHHH
Confidence            46789999999999999999998776432  23566776544433  3333333221    000   0111222333333


Q ss_pred             HHHhhhcCCCcEEEEEeCCC
Q 038205          215 RLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       215 ~~~~~~l~~kr~LlVlDdv~  234 (375)
                      ..+...+..+.-++|+|.+.
T Consensus        94 ~~~~~~~~~~~~lvvIDsi~  113 (218)
T cd01394          94 QETETFADEKVDLVVVDSAT  113 (218)
T ss_pred             HHHHHHHhcCCcEEEEechH
Confidence            33222444446689999874

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

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.12  E-value=0.00078  Score=65.58  Aligned_cols=52  Identities=25%  Similarity=0.332  Sum_probs=43.7

Q ss_pred             CCCCCCccchHHHHHHHHHHH------hcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          118 PRFFSSFETTESACNQIIEAL------KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+..++|.++.+++|++.|      .....+++.++||+|+||||||+.+.+-...
T Consensus        72 y~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         72 YPAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             ccchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            445567889999999999988      2345689999999999999999999987664

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.12  E-value=0.00031  Score=60.32  Aligned_cols=118  Identities=14%  Similarity=0.158  Sum_probs=60.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh--cCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCC-C---HHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ--NNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEK-D---EEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~---~~~~~~~l~  215 (375)
                      ..+++.|.|++|.||||+.+.+....--  -+.|     +  +.......+...+...++...+.. .   .......+.
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~-----v--pa~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~  100 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIALLAIMAQIGCF-----V--PAEYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETA  100 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCC-----c--chhhcCccChhheeEecCCccccchhhhHHHHHHHHHH
Confidence            3579999999999999999988654321  1111     1  111111122333333332211100 0   011111222


Q ss_pred             HHhhhcCCCcEEEEEeCCCCcc---c----ccccCCCCCCCCCCcEEEEEeCChhHHhhhC
Q 038205          216 LMFSESKSRKILVILDDVWKEL---D----LETIGIPVGDRDNCCKILLTTRLQQVCYRMG  269 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~~~---~----~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~  269 (375)
                      .++ .+..++-|+++|+.....   +    ...+...+.  ..|+.+|++|++.+++..+.
T Consensus       101 ~il-~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~--~~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         101 YIL-DYADGDSLVLIDELGRGTSSADGFAISLAILECLI--KKESTVFFATHFRDIAAILG  158 (204)
T ss_pred             HHH-HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhh
Confidence            322 234567899999985421   1    111212222  23789999999988877654

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 sliding c

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

Probab=97.12  E-value=0.0014  Score=64.51  Aligned_cols=156  Identities=19%  Similarity=0.176  Sum_probs=85.0

Q ss_pred             CccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          123 SFETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      +-.|.++..+.|++++.-      -+.++++++||+|+|||++++.++......  |-   -+++..-.+..++--.--.
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--Ff---RfSvGG~tDvAeIkGHRRT  486 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--FF---RFSVGGMTDVAEIKGHRRT  486 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--eE---EEeccccccHHhhccccee
Confidence            346788889999998732      257899999999999999999999887632  31   2233332222222111000


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccccCCC---------CCC-CCCCcEEEE
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLETIGIP---------VGD-RDNCCKILL  257 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~l~~~---------l~~-~~~gs~Iiv  257 (375)
                      .     -..-+..+.+.+.    ..+..+-|+.||+|+...         .+-++..+         +.+ --.-|+|++
T Consensus       487 Y-----VGAMPGkiIq~LK----~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLF  557 (906)
T KOG2004|consen  487 Y-----VGAMPGKIIQCLK----KVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLF  557 (906)
T ss_pred             e-----eccCChHHHHHHH----hhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEE
Confidence            0     1111222333333    334456688899886421         11111111         100 011255554


Q ss_pred             -EeCCh--hH-HhhhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          258 -TTRLQ--QV-CYRMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       258 -TTr~~--~v-~~~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                       .|-+.  .+ ....+....|++.+...+|=..+-.+++
T Consensus       558 icTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  558 ICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             EEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence             33321  11 1223344678999999999888887765

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.12  E-value=0.0017  Score=65.57  Aligned_cols=105  Identities=18%  Similarity=0.240  Sum_probs=60.8

Q ss_pred             CCccchHHHHHHHHHHHhc-------C--CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          122 SSFETTESACNQIIEALKK-------D--STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      ...+|.++.+..+.+.+..       +  ........||.|+|||-||+.++...-...  +..+-+..|.    ..--.
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSE----y~EkH  564 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSE----YMEKH  564 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHH----HHHHH
Confidence            3467899999998888732       1  245677899999999999999988664221  2222222221    11112


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcE-EEEEeCCCCc
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKI-LVILDDVWKE  236 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~-LlVlDdv~~~  236 (375)
                      .+.+-+|.+..=-..++ ...|.+   ..+.++| +++||++...
T Consensus       565 sVSrLIGaPPGYVGyee-GG~LTE---aVRr~PySViLlDEIEKA  605 (786)
T COG0542         565 SVSRLIGAPPGYVGYEE-GGQLTE---AVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHhCCCCCCceecc-ccchhH---hhhcCCCeEEEechhhhc
Confidence            22233333222111122 233444   6666877 8999999753

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.11  E-value=0.0019  Score=65.61  Aligned_cols=30  Identities=27%  Similarity=0.356  Sum_probs=25.2

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      -+....|+|+|.+|+|||||++.+..-...
T Consensus       496 I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p  525 (709)
T COG2274         496 IPPGEKVAIVGRSGSGKSTLLKLLLGLYKP  525 (709)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            356789999999999999999999766543

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.11  E-value=0.0026  Score=58.31  Aligned_cols=28  Identities=32%  Similarity=0.553  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.+.....
T Consensus        26 ~~Gei~~l~G~NGaGKTTLl~~l~Gl~~   53 (301)
T TIGR03522        26 QKGRIVGFLGPNGAGKSTTMKIITGYLP   53 (301)
T ss_pred             eCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999987654

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>cd03243 ABC_MutS_homologs 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

Probab=97.11  E-value=0.00026  Score=60.84  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=21.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..+++|+|++|.||||+.+.+...
T Consensus        29 ~~~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          29 GRLLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             CeEEEEECCCCCccHHHHHHHHHH
Confidence            369999999999999999999843

Members of the MutS family also possess 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 sliding clamps, and recognition of specific DNA stru

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.10  E-value=0.0013  Score=56.49  Aligned_cols=26  Identities=35%  Similarity=0.465  Sum_probs=23.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....+++|+|++|+|||||++.+...
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          24 KKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            35679999999999999999999886

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=97.10  E-value=0.0024  Score=56.00  Aligned_cols=28  Identities=29%  Similarity=0.376  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        27 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~   54 (229)
T cd03254          27 KPGETVAIVGPTGAGKTTLINLLMRFYD   54 (229)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            3567999999999999999999987654

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.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=97.09  E-value=0.0047  Score=53.08  Aligned_cols=29  Identities=24%  Similarity=0.374  Sum_probs=25.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +...+++|.|++|+|||||++.+......
T Consensus        29 ~~G~~~~i~G~nG~GKSTLl~~i~G~~~~   57 (204)
T cd03250          29 PKGELVAIVGPVGSGKSSLLSALLGELEK   57 (204)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcCCC
Confidence            45679999999999999999999887653

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting 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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.08  E-value=0.00077  Score=54.26  Aligned_cols=29  Identities=34%  Similarity=0.485  Sum_probs=25.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      ...|+|.|++|+||||+++.+.+..+..+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            34689999999999999999999988654

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.07  E-value=0.00051  Score=58.93  Aligned_cols=21  Identities=29%  Similarity=0.420  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      +++.|.|++|+|||||.+.+.
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            689999999999999999987

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 also possess 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 sliding clamps, a

>PRK06547 hypothetical protein; Provisional

Probab=97.07  E-value=0.00086  Score=55.93  Aligned_cols=35  Identities=31%  Similarity=0.302  Sum_probs=28.1

Q ss_pred             HHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          134 IIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       134 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+......+|+|.|++|+||||+|+.+.....
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            33344556778999999999999999999988754

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

Probab=97.07  E-value=0.0041  Score=55.45  Aligned_cols=92  Identities=18%  Similarity=0.187  Sum_probs=55.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh----cCCccEEEEEEecCCCChhHHHHHHHHHhCCCC----------CCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ----NNIFDKVGIATVSQDPSIINVQSELVKSLGWAL----------TEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----------~~~~~  207 (375)
                      ...+.=|+|++|+|||.|+-+++-....    .+.=..++|++-...+....+. +|++..+...          ...+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence            3578999999999999999887654321    1223468999888877766554 5666543211          01223


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVW  234 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~  234 (375)
                      .+....+..+...+. .+--|||+|.+.
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecchH
Confidence            344444444333332 345599999875

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.06  E-value=0.00098  Score=58.50  Aligned_cols=30  Identities=40%  Similarity=0.694  Sum_probs=26.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +...+++|.|++|+|||||++.+....+..
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            456799999999999999999999888754

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.05  E-value=0.0044  Score=57.03  Aligned_cols=92  Identities=14%  Similarity=0.064  Sum_probs=54.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh---cC-CccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ---NN-IFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++.|+|++|+|||+|+..++.....   .+ .-..++|+.....++... +.++++.++....          ..+.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~~~~~~l~~i~~~~~~~~  173 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGLNPEDVLDNVAYARAYNT  173 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCCChHHhhccEEEEecCCh
Confidence            4679999999999999999988753321   11 123568888777666654 4445555543211          1122


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVW  234 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~  234 (375)
                      ++....+..+...+. .+--|||+|.+.
T Consensus       174 ~~~~~~l~~~~~~~~~~~~~LvVIDSI~  201 (316)
T TIGR02239       174 DHQLQLLQQAAAMMSESRFALLIVDSAT  201 (316)
T ss_pred             HHHHHHHHHHHHhhccCCccEEEEECcH
Confidence            333333333322333 355689999875

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).

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

Probab=97.04  E-value=0.00057  Score=58.33  Aligned_cols=26  Identities=42%  Similarity=0.678  Sum_probs=23.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +|+|.|++|+||||+|+.+.......
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            69999999999999999999988753

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

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.04  E-value=0.025  Score=55.99  Aligned_cols=166  Identities=15%  Similarity=0.142  Sum_probs=99.6

Q ss_pred             ccchHHHHHHHHHHHh----c-CCCcEEEEEcCCCchHHHHHHHHHhhhhh---c---CCccEEEEEEecCCCChhHHHH
Q 038205          124 FETTESACNQIIEALK----K-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ---N---NIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~----~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~---~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      ...|+.+..+|-..+.    . +....+=|.|-+|+|||.++..|.+....   +   ..|+. +.++.-.-..+..+..
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLRLASPREIYE  476 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEcceeecCHHHHHH
Confidence            4578999999888763    2 33558899999999999999999986652   2   23322 3333334456888999


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhh--cCCCcEEEEEeCCCCccc--ccccCCCCCC-CCCCcEEEEEeC-C-h---
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSE--SKSRKILVILDDVWKELD--LETIGIPVGD-RDNCCKILLTTR-L-Q---  262 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~--l~~kr~LlVlDdv~~~~~--~~~l~~~l~~-~~~gs~IivTTr-~-~---  262 (375)
                      .|...+....  .......+.+...+..  -..+.+++++|+++..-.  -+.+...|.| ..++|+++|.+= + .   
T Consensus       477 ~I~~~lsg~~--~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlP  554 (767)
T KOG1514|consen  477 KIWEALSGER--VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLP  554 (767)
T ss_pred             HHHHhcccCc--ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCH
Confidence            9999886432  2334445555552221  123678999998864311  1111112222 345677655432 1 1   


Q ss_pred             ------hHHhhhCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          263 ------QVCYRMGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       263 ------~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                            .++..++ ...+.+.|.+..+..++...++.
T Consensus       555 Er~l~nrvsSRlg-~tRi~F~pYth~qLq~Ii~~RL~  590 (767)
T KOG1514|consen  555 ERLLMNRVSSRLG-LTRICFQPYTHEQLQEIISARLK  590 (767)
T ss_pred             HHHhccchhhhcc-ceeeecCCCCHHHHHHHHHHhhc
Confidence                  1122222 14567788888888887777664

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.03  E-value=0.0051  Score=50.34  Aligned_cols=39  Identities=26%  Similarity=0.269  Sum_probs=29.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      ++.|+|++|+||||++..+......  .-..++|+......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence            3689999999999999999887754  23456666665443

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.03  E-value=0.048  Score=54.27  Aligned_cols=48  Identities=23%  Similarity=0.241  Sum_probs=37.2

Q ss_pred             CCCccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          121 FSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..++|....+.++.+.+..  .....|.|+|++|+|||++|+.+.+...
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~  244 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP  244 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC
Confidence            35677888888887776632  3345678999999999999999988654

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.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=97.03  E-value=0.0037  Score=53.97  Aligned_cols=89  Identities=22%  Similarity=0.320  Sum_probs=55.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|.|++|+|||+|+..+.+....    +.++++.+.+.. ...++.+++...-..       .....+. .   
T Consensus        13 g~Gqr~~I~g~~g~GKt~Ll~~i~~~~~~----d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~   88 (215)
T PF00006_consen   13 GRGQRIGIFGGAGVGKTVLLQEIANNQDA----DVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYR   88 (215)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHCTT----TEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHH
T ss_pred             ccCCEEEEEcCcccccchhhHHHHhcccc----cceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhh
Confidence            35689999999999999999999988752    334677676543 455555555432100       1111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                        ...-.+.+++.. +++.+|+++||+.
T Consensus        89 ~~~~a~t~AEyfrd-~G~dVlli~Dslt  115 (215)
T PF00006_consen   89 APYTALTIAEYFRD-QGKDVLLIIDSLT  115 (215)
T ss_dssp             HHHHHHHHHHHHHH-TTSEEEEEEETHH
T ss_pred             hhccchhhhHHHhh-cCCceeehhhhhH
Confidence              112233444444 7899999999974

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.03  E-value=0.0015  Score=60.88  Aligned_cols=113  Identities=12%  Similarity=0.096  Sum_probs=64.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh-HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII-NVQSELVKSLGWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      ....|.|.|+.|+||||+++.+.+....  .....++. +..+.... .-...+..+-  .. ..........+..   .
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~~--~~~~~i~t-iEdp~E~~~~~~~~~i~q~--ev-g~~~~~~~~~l~~---~  191 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYINK--NAAGHIIT-IEDPIEYVHRNKRSLINQR--EV-GLDTLSFANALRA---A  191 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhCc--CCCCEEEE-EcCChhhhccCccceEEcc--cc-CCCCcCHHHHHHH---h
Confidence            3578999999999999999998876542  22333333 22211110 0000000000  00 1111234455666   7


Q ss_pred             cCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          221 SKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      +...+=.|++|++.+.+.+.....   ....|..++.|.+..+...
T Consensus       192 lr~~pd~i~vgEird~~~~~~~l~---aa~tGh~v~~T~Ha~~~~~  234 (343)
T TIGR01420       192 LREDPDVILIGEMRDLETVELALT---AAETGHLVFGTLHTNSAAQ  234 (343)
T ss_pred             hccCCCEEEEeCCCCHHHHHHHHH---HHHcCCcEEEEEcCCCHHH
Confidence            888999999999987766543211   2345667888888755543

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.02  E-value=0.00026  Score=59.94  Aligned_cols=21  Identities=33%  Similarity=0.328  Sum_probs=18.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ++.|.|++|.||||+++.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999873

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.02  E-value=0.0054  Score=56.83  Aligned_cols=92  Identities=16%  Similarity=0.063  Sum_probs=56.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh----cCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ----NNIFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++-|+|++|+|||+|+.+++-....    ...-..++|+.....|.+..+. +++++++....          ..+.
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~-~ia~~~g~d~~~~l~~I~~~~~~~~  203 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIV-PIAERFGMDADAVLDNIIYARAYTY  203 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHH-HHHHHcCCChhhhcCeEEEecCCCH
Confidence            4578889999999999999988643321    1122468899888877776655 45666654321          1223


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVW  234 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~  234 (375)
                      +.....+..+...+. .+--|||+|.+.
T Consensus       204 e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        204 EHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            333333333222332 345589999875

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=97.02  E-value=0.003  Score=64.97  Aligned_cols=29  Identities=28%  Similarity=0.324  Sum_probs=24.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       489 ~~G~~iaIvG~sGsGKSTLlklL~gl~~p  517 (694)
T TIGR03375       489 RPGEKVAIIGRIGSGKSTLLKLLLGLYQP  517 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            45679999999999999999999776543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.02  E-value=0.002  Score=53.22  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ++..|+|++|.|||++.+.+.-
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~   43 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGL   43 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6999999999999999998643

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.01  E-value=0.004  Score=50.90  Aligned_cols=116  Identities=25%  Similarity=0.282  Sum_probs=58.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC---CCChhHHHHHHHHHh-----CCC--CC-CCCHHH---
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ---DPSIINVQSELVKSL-----GWA--LT-EKDEED---  209 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~~~l-----~~~--~~-~~~~~~---  209 (375)
                      ..|-|++.+|.||||+|-...-+....+ + .+.++..-.   .......++.+ ..+     +..  .. ....++   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g-~-~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHG-Y-RVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            5788899999999999988877665332 2 233322221   22333333333 001     110  00 111111   


Q ss_pred             HHHHHHHHhhhcCC-CcEEEEEeCCCCc-----ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          210 RADRLRLMFSESKS-RKILVILDDVWKE-----LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       210 ~~~~l~~~~~~l~~-kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      ....+....+.+.. .--|||||++-..     ...+.+...+.....+..+|+|.|+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            11122222224444 4459999997543     22333333344445567999999984

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.01  E-value=0.0031  Score=54.54  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=21.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...-.|+|++|+|||||++.+..+..
T Consensus        57 ge~W~I~G~NGsGKTTLL~ll~~~~~   82 (257)
T COG1119          57 GEHWAIVGPNGAGKTTLLSLLTGEHP   82 (257)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhcccC
Confidence            45678999999999999999876554

>TIGR00235 udk uridine kinase

Probab=97.00  E-value=0.00061  Score=58.83  Aligned_cols=28  Identities=36%  Similarity=0.502  Sum_probs=24.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+|+|+|++|+|||||++.+.....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3467999999999999999999998765

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

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.00  E-value=0.00064  Score=58.74  Aligned_cols=27  Identities=33%  Similarity=0.539  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+..+|+|.|++|+|||||++.+....
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999999876

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.99  E-value=0.0045  Score=61.65  Aligned_cols=92  Identities=18%  Similarity=0.254  Sum_probs=61.1

Q ss_pred             CCccchHHHHHHHHHHHhc---------C---CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhH
Q 038205          122 SSFETTESACNQIIEALKK---------D---STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~---------~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  189 (375)
                      .+..|-++.+.+|.+-+.-         .   ...=|.++||+|.|||-+|++|+....-.       |++|..+    +
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~-------FlSVKGP----E  740 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN-------FLSVKGP----E  740 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee-------EEeecCH----H
Confidence            4566788888888877632         1   13468899999999999999999877632       4555432    2


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      ++...   +     .++.+...+.+.+   +-...+|+|.||++++
T Consensus       741 LLNMY---V-----GqSE~NVR~VFer---AR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  741 LLNMY---V-----GQSEENVREVFER---ARSAAPCVIFFDELDS  775 (953)
T ss_pred             HHHHH---h-----cchHHHHHHHHHH---hhccCCeEEEeccccc
Confidence            22111   1     2334444444554   5567999999999875

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.99  E-value=0.0091  Score=53.20  Aligned_cols=96  Identities=16%  Similarity=0.098  Sum_probs=60.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh--cCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC-------CCCCCH-H-
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ--NNIFDKVGIATVSQDP-SIINVQSELVKSLGWA-------LTEKDE-E-  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~-~-  208 (375)
                      ...+.++|.|..|+|||+|+..+.+....  .+.-+.++++-+.+.. +..++..++...=...       ..+.+. . 
T Consensus        67 g~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r  146 (276)
T cd01135          67 VRGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIER  146 (276)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHH
Confidence            45789999999999999999998876541  1234567777777654 4555666555431110       111111 1 


Q ss_pred             ----HHHHHHHHHhhhcCCCcEEEEEeCCCCc
Q 038205          209 ----DRADRLRLMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       209 ----~~~~~l~~~~~~l~~kr~LlVlDdv~~~  236 (375)
                          .....+.+++..-.++++|+++||+...
T Consensus       147 ~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         147 IITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence                2234455655444589999999998643

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

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

Probab=96.99  E-value=0.0032  Score=57.68  Aligned_cols=83  Identities=19%  Similarity=0.163  Sum_probs=52.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCC------CCCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWAL------TEKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+||||||.+++......  -..++|+.....++.     ..+++++.+.      ...+.++....+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~-----~~a~~lGvd~~~l~v~~p~~~eq~l~i~~  126 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDP-----VYAKKLGVDLDNLLISQPDTGEQALEIAD  126 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHH-----HHHHHcCCCHHHheecCCCCHHHHHHHHH
Confidence            46799999999999999999987665432  345678876665553     2344444321      1223344444444


Q ss_pred             HHhhhc-CCCcEEEEEeCCC
Q 038205          216 LMFSES-KSRKILVILDDVW  234 (375)
Q Consensus       216 ~~~~~l-~~kr~LlVlDdv~  234 (375)
                      .   .. .+..-++|+|.+.
T Consensus       127 ~---li~s~~~~lIVIDSva  143 (325)
T cd00983         127 S---LVRSGAVDLIVVDSVA  143 (325)
T ss_pred             H---HHhccCCCEEEEcchH
Confidence            3   22 3456699999875

RecA couples ATP hydrolysis to DNA strand exchange.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.98  E-value=0.0016  Score=64.28  Aligned_cols=75  Identities=24%  Similarity=0.301  Sum_probs=49.9

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS  219 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  219 (375)
                      .+..++..++|++|+||||||..++++...     .++=++.|..-+...+-..|...+..                 .+
T Consensus       323 RP~kKilLL~GppGlGKTTLAHViAkqaGY-----sVvEINASDeRt~~~v~~kI~~avq~-----------------~s  380 (877)
T KOG1969|consen  323 RPPKKILLLCGPPGLGKTTLAHVIAKQAGY-----SVVEINASDERTAPMVKEKIENAVQN-----------------HS  380 (877)
T ss_pred             CCccceEEeecCCCCChhHHHHHHHHhcCc-----eEEEecccccccHHHHHHHHHHHHhh-----------------cc
Confidence            345679999999999999999999987652     24555666655555554444433311                 11


Q ss_pred             hcC--CCcEEEEEeCCCCc
Q 038205          220 ESK--SRKILVILDDVWKE  236 (375)
Q Consensus       220 ~l~--~kr~LlVlDdv~~~  236 (375)
                      .+.  +++.-||+|+++..
T Consensus       381 ~l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  381 VLDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             ccccCCCcceEEEecccCC
Confidence            332  57778999998754

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.98  E-value=0.0058  Score=58.69  Aligned_cols=93  Identities=16%  Similarity=0.167  Sum_probs=59.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|.|.+|+|||||+.++.+..... +-+.++++-+.... ...+++..+...-..       ...+.+. .   
T Consensus       141 gkGQR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        141 AKGGKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            457899999999999999999988877643 45667777666543 455566655543211       1111121 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                        .....+.+++..-.++.+||++|++.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslT  247 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIF  247 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccch
Confidence              22234445443345899999999984

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.98  E-value=0.0036  Score=52.75  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|.|+|++|+||||+|+.+.....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999988664

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>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=96.98  E-value=0.0022  Score=53.62  Aligned_cols=26  Identities=42%  Similarity=0.522  Sum_probs=22.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ++.++|++|+||||++..+.......
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            67899999999999999998877643

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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.0094  Score=58.67  Aligned_cols=200  Identities=20%  Similarity=0.233  Sum_probs=103.5

Q ss_pred             CCCccchHHHH---HHHHHHHhcCC---------CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          121 FSSFETTESAC---NQIIEALKKDS---------TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       121 ~~~~~gr~~~~---~~l~~~l~~~~---------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      +...-|.++..   .++++.|.++.         ++-+.++||+|.|||.||+.+.....+.  |     .++|.+.   
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~---  218 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSD---  218 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchh---
Confidence            44455666554   55555565542         5678999999999999999999988764  2     1122110   


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCCCCC--
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVGDRD--  250 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~~~--  250 (375)
                        +-++.-       ........+...+   +.+.-++++++|.++...                .+.++........  
T Consensus       219 --FVemfV-------GvGAsRVRdLF~q---Akk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         219 --FVEMFV-------GVGASRVRDLFEQ---AKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             --hhhhhc-------CCCcHHHHHHHHH---hhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence              001111       1112333444444   667788999999876421                2333333333332  


Q ss_pred             CCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH--HHH-
Q 038205          251 NCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI--KAV-  322 (375)
Q Consensus       251 ~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai--~~i-  322 (375)
                      .|..||-.|..++|...  +   ..+..+.++..+-..-.++++-++-.....+. .+. ..|++.+-|.-.|-  +.+ 
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~-Vdl-~~iAr~tpGfsGAdL~nl~N  364 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAED-VDL-KKIARGTPGFSGADLANLLN  364 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCc-CCH-HHHhhhCCCcccchHhhhHH
Confidence            34344444544544322  1   22355666666656666677655542222221 112 22777777665542  222 


Q ss_pred             -HHHhc---CC---CHHHHHHHHHHhhhc
Q 038205          323 -GSALR---LR---TADEWNVALDKLQNA  344 (375)
Q Consensus       323 -~~~L~---~~---~~~~w~~~l~~l~~~  344 (375)
                       |.++.   ++   +..+...+.+++-..
T Consensus       365 EAal~aar~n~~~i~~~~i~ea~drv~~G  393 (596)
T COG0465         365 EAALLAARRNKKEITMRDIEEAIDRVIAG  393 (596)
T ss_pred             HHHHHHHHhcCeeEeccchHHHHHHHhcC
Confidence             33332   21   445555555555443

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.98  E-value=0.0022  Score=64.63  Aligned_cols=27  Identities=30%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +....++|+|++|+|||||++.+....
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999999997765

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=96.96  E-value=0.00056  Score=59.61  Aligned_cols=171  Identities=15%  Similarity=0.191  Sum_probs=79.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh--hcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR--QNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT----EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~l~  215 (375)
                      +.+++.|.|++|.||||+.+.+....-  ..+.|     +..  ..........++..++....    ..+.......+.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~g~~-----vpa--~~~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a  101 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVIVLMAQIGCF-----VPC--DSADIPIVDCILARVGASDSQLKGVSTFMAEMLETA  101 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHHHHhCCC-----cCc--ccEEEeccceeEeeeccccchhcCcChHHHHHHHHH
Confidence            467999999999999999998764311  11111     111  00111112222222221110    111112222333


Q ss_pred             HHhhhcCCCcEEEEEeCC---CCccc-----ccccCCCCCCCCCCcEEEEEeCChhHHhhhCCCCc---ccCCCCChH--
Q 038205          216 LMFSESKSRKILVILDDV---WKELD-----LETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPR---IKLDALDQA--  282 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv---~~~~~-----~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~---~~l~~L~~~--  282 (375)
                      .+++.+ .++-|++||+.   .+..+     |..+ ..+.. ..|+.+|+||+..++...+.....   .++.....+  
T Consensus       102 ~il~~~-~~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~~~~~~i~~g~~~~~~~~~~  178 (222)
T cd03285         102 AILKSA-TENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALADEVPNVKNLHVTALTDDAS  178 (222)
T ss_pred             HHHHhC-CCCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHhhcCCCeEEEEEEEEEeCCC
Confidence            322223 56889999999   33221     1111 11211 246789999998777654432211   122111111  


Q ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc
Q 038205          283 EGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR  327 (375)
Q Consensus       283 e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~  327 (375)
                      +.. .|...+......   ...+-.+++.+ |+|-.+..-|.-+.
T Consensus       179 ~~~-~~~Y~l~~G~~~---~s~a~~~a~~~-g~p~~vi~~A~~~~  218 (222)
T cd03285         179 RTL-TMLYKVEKGACD---QSFGIHVAELA-NFPKEVIEMAKQKA  218 (222)
T ss_pred             CcE-eEEEEEeeCCCC---CcHHHHHHHHh-CcCHHHHHHHHHHH
Confidence            111 122222111111   34466676666 88888877665443

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 sliding c

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.96  E-value=0.0045  Score=51.30  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=21.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..++-.|+|.+|+|||||...+.-.
T Consensus        36 ~apIT~i~GENGsGKSTLLEaiA~~   60 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAIAAG   60 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHHHhh
Confidence            4578999999999999999988644

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.96  E-value=0.0077  Score=53.49  Aligned_cols=170  Identities=22%  Similarity=0.253  Sum_probs=85.1

Q ss_pred             CccchHHHHHHHHHHH---------hcC---CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHH
Q 038205          123 SFETTESACNQIIEAL---------KKD---STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINV  190 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l---------~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  190 (375)
                      ..-|-+...+.|.+..         ..+   .-+-|.++||+|.|||.||+.|+......       |.++|...    +
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST-------FFSvSSSD----L  202 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST-------FFSVSSSD----L  202 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc-------eEEeehHH----H
Confidence            3445666666665543         111   25678999999999999999999876622       34444431    1


Q ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccccC----C---CCCCCCCCcE
Q 038205          191 QSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLETIG----I---PVGDRDNCCK  254 (375)
Q Consensus       191 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~l~----~---~l~~~~~gs~  254 (375)
                      ..   +-++      ..+.+...|.++  +-+.++-+|.+|+++...         .-+.|.    .   -......|.-
T Consensus       203 vS---KWmG------ESEkLVknLFem--ARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvL  271 (439)
T KOG0739|consen  203 VS---KWMG------ESEKLVKNLFEM--ARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVL  271 (439)
T ss_pred             HH---HHhc------cHHHHHHHHHHH--HHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceE
Confidence            11   1111      012222222221  445789999999986421         111111    1   1223344555


Q ss_pred             EEEEeCChhHHhhh---CCCCcccCCCCChH-HHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          255 ILLTTRLQQVCYRM---GCDPRIKLDALDQA-EGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       255 IivTTr~~~v~~~~---~~~~~~~l~~L~~~-e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                      |+=.|..+-+....   .....|.+ ||++. .-..+|+-+++... ...-....+++.++..|.-
T Consensus       272 VLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp-~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  272 VLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTP-HVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             EEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCCCc-cccchhhHHHHHhhcCCCC
Confidence            55566654443221   11122333 33333 33456666665322 2222344566777776553

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.96  E-value=0.00097  Score=57.99  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ..+++.|.|++|.||||+.+.+..
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999877

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 sliding c

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.95  E-value=0.0044  Score=52.48  Aligned_cols=28  Identities=29%  Similarity=0.418  Sum_probs=23.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+.++.||+|+||||+.+.+.....
T Consensus        31 ~~~~VTAlIGPSGcGKST~LR~lNRmnd   58 (253)
T COG1117          31 PKNKVTALIGPSGCGKSTLLRCLNRMND   58 (253)
T ss_pred             cCCceEEEECCCCcCHHHHHHHHHhhcc
Confidence            4567999999999999999998866543

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.94  E-value=0.0042  Score=59.02  Aligned_cols=90  Identities=18%  Similarity=0.309  Sum_probs=54.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      .....++|+|++|+|||||++.+.+...    .+.++.+-+.+.. ...++..+++..-+.       ...+.+. .   
T Consensus       160 ~~GqrigI~G~sG~GKSTLL~~I~~~~~----~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        160 GKGQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             cCCCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            3567999999999999999999986543    2455555565544 444555555433211       1111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++.. +++.+||++||+..
T Consensus       236 a~~~A~tiAEyfrd-~G~~VLl~~DslTR  263 (444)
T PRK08972        236 GCETATTIAEYFRD-QGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHH-cCCCEEEEEcChHH
Confidence              122334554433 58999999999854

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

Probab=96.94  E-value=0.0087  Score=55.81  Aligned_cols=101  Identities=17%  Similarity=0.226  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHHhcC----CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-CChhHHHHHHHHHhCCCC
Q 038205          128 ESACNQIIEALKKD----STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-PSIINVQSELVKSLGWAL  202 (375)
Q Consensus       128 ~~~~~~l~~~l~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~  202 (375)
                      .+....+..++..+    ..++|.++||.|+||||....++........-..+..++...- -...+-++..++-++.+.
T Consensus       184 ~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~  263 (407)
T COG1419         184 SEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPL  263 (407)
T ss_pred             HHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCce
Confidence            34445555555443    3789999999999999755544444432222334555554322 133344445555555554


Q ss_pred             CC-CCHHHHHHHHHHHhhhcCCCcEEEEEeCC
Q 038205          203 TE-KDEEDRADRLRLMFSESKSRKILVILDDV  233 (375)
Q Consensus       203 ~~-~~~~~~~~~l~~~~~~l~~kr~LlVlDdv  233 (375)
                      .. .++.+....+.    .+.+. -++.+|-+
T Consensus       264 ~vv~~~~el~~ai~----~l~~~-d~ILVDTa  290 (407)
T COG1419         264 EVVYSPKELAEAIE----ALRDC-DVILVDTA  290 (407)
T ss_pred             EEecCHHHHHHHHH----HhhcC-CEEEEeCC
Confidence            32 34445544444    33333 35556644

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.2  Score=43.87  Aligned_cols=47  Identities=26%  Similarity=0.304  Sum_probs=36.1

Q ss_pred             CCccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          122 SSFETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|-+..+++|.+.+-             -..+.-+..+||+|.|||-+|+..+....
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~  230 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN  230 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc
Confidence            445677888888888751             12366788999999999999999877655

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.93  E-value=0.003  Score=57.14  Aligned_cols=28  Identities=25%  Similarity=0.372  Sum_probs=23.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+.+|+|.|++|+||||+|+.+.....
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4567999999999999999998876654

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.

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.93  E-value=0.0029  Score=62.84  Aligned_cols=28  Identities=29%  Similarity=0.376  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  373 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGFVD  373 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4578999999999999999999977654

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.92  E-value=0.0033  Score=65.51  Aligned_cols=46  Identities=26%  Similarity=0.263  Sum_probs=35.6

Q ss_pred             CccchHHHHHHHHHHHhc-------C--CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK-------D--STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.+..++.+.+.+..       +  ...++.++||+|+|||.||+.+....-
T Consensus       567 ~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       567 RVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             eEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456888888888887632       1  134689999999999999999987764

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.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.91  E-value=0.0063  Score=60.49  Aligned_cols=28  Identities=36%  Similarity=0.615  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus        25 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~~   52 (530)
T PRK15064         25 GGGNRYGLIGANGCGKSTFMKILGGDLE   52 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999998654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.91  E-value=0.0063  Score=52.40  Aligned_cols=51  Identities=18%  Similarity=0.223  Sum_probs=37.7

Q ss_pred             CCCCccchHHHHHHHHHHH----hcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          120 FFSSFETTESACNQIIEAL----KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+...+|.+...+.|.+--    ..-...-|.+||.-|.|||+|++.+.+.....
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~  112 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE  112 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc
Confidence            3455677777777666542    22344578899999999999999999988754

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=96.91  E-value=0.0057  Score=49.97  Aligned_cols=126  Identities=17%  Similarity=0.183  Sum_probs=73.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh-------------------cCCcc--EEEEEEec-----C------------
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ-------------------NNIFD--KVGIATVS-----Q------------  183 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~-------------------~~~f~--~~~wv~~~-----~------------  183 (375)
                      ....++|+|++|+|||||...++.-...                   +..|.  .+.+|.-|     .            
T Consensus        35 ~Ge~vaiVG~SGSGKSTLl~vlAGLd~~ssGeV~l~G~~L~~ldEd~rA~~R~~~vGfVFQSF~Lip~ltAlENV~lPle  114 (228)
T COG4181          35 RGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHKLDEDARAALRARHVGFVFQSFHLIPNLTALENVALPLE  114 (228)
T ss_pred             CCceEEEEcCCCCcHHhHHHHHhcCCCCCCceEEEcCcchhhcCHHHHHHhhccceeEEEEeeeccccchhhhhccchhh
Confidence            4568999999999999998876543221                   01111  12222111     0            


Q ss_pred             -----CCChhHHHHHHHHHhCCCC-------CCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc------ccccccCCC
Q 038205          184 -----DPSIINVQSELVKSLGWAL-------TEKDEEDRADRLRLMFSESKSRKILVILDDVWKE------LDLETIGIP  245 (375)
Q Consensus       184 -----~~~~~~~~~~i~~~l~~~~-------~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~------~~~~~l~~~  245 (375)
                           ..+.....+..+.+++...       .-...++..-.+.+   .+...+-+|+-|+-...      ....++...
T Consensus       115 L~ge~~~~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiAR---Afa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~  191 (228)
T COG4181         115 LRGESSADSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALAR---AFAGRPDVLFADEPTGNLDRATGDKIADLLFA  191 (228)
T ss_pred             hcCCccccHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHH---HhcCCCCEEeccCCCCCcchhHHHHHHHHHHH
Confidence                 1123344556666665321       11233455556666   88889999999976422      223333223


Q ss_pred             CCCCCCCcEEEEEeCChhHHhhhCCC
Q 038205          246 VGDRDNCCKILLTTRLQQVCYRMGCD  271 (375)
Q Consensus       246 l~~~~~gs~IivTTr~~~v~~~~~~~  271 (375)
                      +. ...|..+++.|+++.++..|...
T Consensus       192 ln-re~G~TlVlVTHD~~LA~Rc~R~  216 (228)
T COG4181         192 LN-RERGTTLVLVTHDPQLAARCDRQ  216 (228)
T ss_pred             Hh-hhcCceEEEEeCCHHHHHhhhhe
Confidence            32 35688999999999999877643

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.90  E-value=0.076  Score=54.54  Aligned_cols=47  Identities=19%  Similarity=0.246  Sum_probs=34.9

Q ss_pred             CCccchHHHHHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          122 SSFETTESACNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|+...+..+.+.+.  .....-|.|+|++|+|||++|+.+.+...
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~  424 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSG  424 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            456677777777665543  23445789999999999999999987653

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

Probab=96.89  E-value=0.0031  Score=64.55  Aligned_cols=45  Identities=24%  Similarity=0.277  Sum_probs=35.5

Q ss_pred             ccchHHHHHHHHHHHhc--------C-CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALKK--------D-STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~--------~-~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++.++.|...+..        + ....+.++||+|+|||++|+.+.....
T Consensus       460 ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        460 VFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             EeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            56888888888887742        1 134688999999999999999988763

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=96.89  E-value=0.0035  Score=58.81  Aligned_cols=28  Identities=29%  Similarity=0.516  Sum_probs=24.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||.+.+......
T Consensus        30 ~Ge~~~llGpsGsGKSTLLr~iaGl~~p   57 (362)
T TIGR03258        30 AGELLALIGKSGCGKTTLLRAIAGFVKA   57 (362)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4579999999999999999999876543

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.88  E-value=0.0028  Score=56.75  Aligned_cols=122  Identities=14%  Similarity=0.063  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHH
Q 038205          129 SACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEE  208 (375)
Q Consensus       129 ~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~  208 (375)
                      +..+.+.+++ ......+.|.|+.|+||||+++.+.+.....  -..++.+.-+.......+     .++.  .......
T Consensus        67 ~~~~~l~~~~-~~~~GlilisG~tGSGKTT~l~all~~i~~~--~~~iitiEdp~E~~~~~~-----~q~~--v~~~~~~  136 (264)
T cd01129          67 ENLEIFRKLL-EKPHGIILVTGPTGSGKTTTLYSALSELNTP--EKNIITVEDPVEYQIPGI-----NQVQ--VNEKAGL  136 (264)
T ss_pred             HHHHHHHHHH-hcCCCEEEEECCCCCcHHHHHHHHHhhhCCC--CCeEEEECCCceecCCCc-----eEEE--eCCcCCc
Confidence            3444444444 3445689999999999999999887765421  112222221111111110     0111  1111112


Q ss_pred             HHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          209 DRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       209 ~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      .....+..   .++..+-.++++++.+.+....+...   ...|..++-|.+-.+...
T Consensus       137 ~~~~~l~~---~lR~~PD~i~vgEiR~~e~a~~~~~a---a~tGh~v~tTlHa~~~~~  188 (264)
T cd01129         137 TFARGLRA---ILRQDPDIIMVGEIRDAETAEIAVQA---ALTGHLVLSTLHTNDAPG  188 (264)
T ss_pred             CHHHHHHH---HhccCCCEEEeccCCCHHHHHHHHHH---HHcCCcEEEEeccCCHHH
Confidence            34555666   77788899999999887654432212   123445666666554433

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=96.87  E-value=0.0097  Score=55.01  Aligned_cols=57  Identities=28%  Similarity=0.328  Sum_probs=36.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC--ChhHHHHHHHHHhCCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP--SIINVQSELVKSLGWA  201 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~  201 (375)
                      ++.+|.++|++|+||||++..++......+ + .++.+.. ..+  ....-++.....++.+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g-~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~  197 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNG-F-SVVIAAG-DTFRAGAIEQLEEHAERLGVK  197 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC-C-eEEEecC-CcCcHHHHHHHHHHHHHcCCc
Confidence            467999999999999999999888776432 3 2333322 222  2333455566666654

>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=96.87  E-value=0.00085  Score=52.77  Aligned_cols=22  Identities=45%  Similarity=0.813  Sum_probs=20.4

Q ss_pred             EEEEcCCCchHHHHHHHHHhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      |+|.|++|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998885

...

>PHA00729 NTP-binding motif containing protein

Probab=96.86  E-value=0.0015  Score=56.40  Aligned_cols=36  Identities=28%  Similarity=0.318  Sum_probs=28.4

Q ss_pred             HHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          133 QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       133 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ++.+.+...+...|.|+|++|+||||||..+.+..-
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344555555666899999999999999999988753

>TIGR02012 tigrfam_recA protein RecA

Probab=96.86  E-value=0.0053  Score=56.25  Aligned_cols=84  Identities=14%  Similarity=0.170  Sum_probs=52.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCC------CCCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWAL------TEKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+||||||.++.......  -..++|+.....++..     .+++++...      ...+.++....+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            46799999999999999999887766532  2456677665544432     345554321      1223344444443


Q ss_pred             HHhhhc-CCCcEEEEEeCCCC
Q 038205          216 LMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      .   .. .+..-++|+|.+..
T Consensus       127 ~---li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       127 T---LVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             H---HhhccCCcEEEEcchhh
Confidence            3   33 24566999998753

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

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.86  E-value=0.011  Score=51.96  Aligned_cols=53  Identities=19%  Similarity=0.276  Sum_probs=33.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      ...++.|.|++|+||||++.++.......+  ..+++++  ...+...+++.+ .+++
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~--~e~~~~~~~~~~-~~~g   75 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVS--TQLTTTEFIKQM-MSLG   75 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEe--CCCCHHHHHHHH-HHhC
Confidence            456999999999999999866655443222  2345554  333556666665 3444

>PRK08233 hypothetical protein; Provisional

Probab=96.86  E-value=0.00094  Score=56.19  Aligned_cols=26  Identities=35%  Similarity=0.586  Sum_probs=23.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|+|.|++|+||||||+.+.....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998764

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=96.85  E-value=0.0033  Score=63.21  Aligned_cols=28  Identities=29%  Similarity=0.431  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       359 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  386 (585)
T TIGR01192       359 KAGQTVAIVGPTGAGKTTLINLLQRVYD  386 (585)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHccCCC
Confidence            4578999999999999999999976654

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.85  E-value=0.06  Score=49.02  Aligned_cols=142  Identities=14%  Similarity=0.094  Sum_probs=77.7

Q ss_pred             HHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhh--------hhcCCccEEEEEEe-cCCCChhHHHHHHHHHhCC
Q 038205          131 CNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQL--------RQNNIFDKVGIATV-SQDPSIINVQSELVKSLGW  200 (375)
Q Consensus       131 ~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~--------~~~~~f~~~~wv~~-~~~~~~~~~~~~i~~~l~~  200 (375)
                      +..+.+.+..+. .++..++|+.|.||+++|..+.+..        ....+-+...++.. ....... -.+++.+.+..
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd-~Ir~l~~~~~~   83 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKS-EFLSAINKLYF   83 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHH-HHHHHHHHhcc
Confidence            344555555544 5677899999999999999998776        11111112222211 1111111 11122222210


Q ss_pred             CCCCCCHHHHHHHHHHHhhh-cCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCC-hhHHhh-hCCCCccc
Q 038205          201 ALTEKDEEDRADRLRLMFSE-SKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRL-QQVCYR-MGCDPRIK  275 (375)
Q Consensus       201 ~~~~~~~~~~~~~l~~~~~~-l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~-~~v~~~-~~~~~~~~  275 (375)
                                        .. -.+++-++|+|+++...  ....+...+..-.+.+.+|++|.+ ..+... ......++
T Consensus        84 ------------------~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~  145 (299)
T PRK07132         84 ------------------SSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFN  145 (299)
T ss_pred             ------------------CCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEE
Confidence                              01 12577788999986542  233333333333345666665544 444433 33446889


Q ss_pred             CCCCChHHHHHHHHHH
Q 038205          276 LDALDQAEGLDLLRKH  291 (375)
Q Consensus       276 l~~L~~~e~~~Lf~~~  291 (375)
                      +.++++++....+...
T Consensus       146 f~~l~~~~l~~~l~~~  161 (299)
T PRK07132        146 VKEPDQQKILAKLLSK  161 (299)
T ss_pred             CCCCCHHHHHHHHHHc
Confidence            9999999998877654

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

Probab=96.84  E-value=0.01  Score=48.30  Aligned_cols=25  Identities=40%  Similarity=0.631  Sum_probs=22.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ++.|+|.+|+||||+|+.+......
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999988753

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

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.84  E-value=0.0065  Score=50.30  Aligned_cols=117  Identities=16%  Similarity=0.057  Sum_probs=60.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEE--EEEecCCCChhHHHHHHHHHh-----CC--CCCCCCHH----H
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVG--IATVSQDPSIINVQSELVKSL-----GW--ALTEKDEE----D  209 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~--wv~~~~~~~~~~~~~~i~~~l-----~~--~~~~~~~~----~  209 (375)
                      ...|-|++..|.||||.|-.+.-+....+ +...+  |+...........+..+  .+     +.  .+...+..    .
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g-~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHG-KKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCC-CeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHH
Confidence            36888999999999999988877665432 22211  33222222333344332  11     11  11111111    1


Q ss_pred             HHHHHHHHhhhcCCC-cEEEEEeCCCCc-----ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          210 RADRLRLMFSESKSR-KILVILDDVWKE-----LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       210 ~~~~l~~~~~~l~~k-r~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      ....+....+.+... --|||||++-..     -..+.+...+.....+..||+|-|+.
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            112222222244444 449999997532     22333333444455667999999974

Alternate name: corrinoid adenosyltransferase.

>PTZ00301 uridine kinase; Provisional

Probab=96.84  E-value=0.00095  Score=57.52  Aligned_cols=25  Identities=28%  Similarity=0.601  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|+|.|++|+||||||+.+.....
T Consensus         4 ~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          4 TVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             EEEEEECCCcCCHHHHHHHHHHHHH
Confidence            5899999999999999999887764

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

Probab=96.83  E-value=0.001  Score=46.32  Aligned_cols=23  Identities=39%  Similarity=0.647  Sum_probs=21.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +|.|.|++|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999885

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.

>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=96.83  E-value=0.0029  Score=50.70  Aligned_cols=41  Identities=34%  Similarity=0.296  Sum_probs=29.3

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHH
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQ  191 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  191 (375)
                      |.++|++|+|||+||+.++.....     ...-+.+++..+..+++
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~   42 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLI   42 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccce
Confidence            678999999999999999998832     22334566666655544

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.

>PRK07667 uridine kinase; Provisional

Probab=96.83  E-value=0.0019  Score=55.06  Aligned_cols=38  Identities=32%  Similarity=0.603  Sum_probs=28.8

Q ss_pred             HHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          132 NQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       132 ~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.|.+.+..  +...+|+|.|++|+||||+|+.+......
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            344444433  33469999999999999999999988764

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.82  E-value=0.0046  Score=62.25  Aligned_cols=29  Identities=31%  Similarity=0.417  Sum_probs=24.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       367 ~~G~~~aIvG~sGsGKSTLl~ll~gl~~p  395 (582)
T PRK11176        367 PAGKTVALVGRSGSGKSTIANLLTRFYDI  395 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccCC
Confidence            35678999999999999999999876653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.82  E-value=0.005  Score=64.28  Aligned_cols=46  Identities=22%  Similarity=0.288  Sum_probs=35.4

Q ss_pred             CccchHHHHHHHHHHHhc-------CC--CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK-------DS--TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~-------~~--~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.+..+..+...+..       ++  ...+.++||+|+|||+||+.+.+..-
T Consensus       510 ~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        510 RIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             cCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            467888888888887642       11  23567899999999999999988653

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

Probab=96.82  E-value=0.001  Score=53.49  Aligned_cols=24  Identities=42%  Similarity=0.559  Sum_probs=21.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999986654

...

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.81  E-value=0.0056  Score=57.81  Aligned_cols=25  Identities=32%  Similarity=0.312  Sum_probs=22.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998755

>PRK06921 hypothetical protein; Provisional

Probab=96.81  E-value=0.0046  Score=55.43  Aligned_cols=38  Identities=26%  Similarity=0.225  Sum_probs=28.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      ...-+.++|++|+|||+|+..+++...... -..+++++
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~  153 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFP  153 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEE
Confidence            356799999999999999999999876431 23345554

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.81  E-value=0.016  Score=53.81  Aligned_cols=44  Identities=18%  Similarity=0.198  Sum_probs=30.4

Q ss_pred             cchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          125 ETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       125 ~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|....+.++.+.+..  ....-|.|+|.+|+||+++|+.+.....
T Consensus         2 iG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~   47 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSK   47 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcC
Confidence            3444555555554422  3345789999999999999999987544

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.80  E-value=0.0049  Score=57.27  Aligned_cols=146  Identities=16%  Similarity=0.250  Sum_probs=78.2

Q ss_pred             chHHHHHHHHHHHhc-----------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC--cc-EEEEEE-----
Q 038205          126 TTESACNQIIEALKK-----------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI--FD-KVGIAT-----  180 (375)
Q Consensus       126 gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~-~~~wv~-----  180 (375)
                      +-..++..|.+.+..                 ....++.|+|.+|+||||+.+++.........  |. ..--+.     
T Consensus       375 ~lp~e~~~IleSFGv~~r~ieryvlr~vNL~ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt  454 (593)
T COG2401         375 GLPNEFQDILESFGVRQRVIERYVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNT  454 (593)
T ss_pred             cCChHHHHHHHHhcchheeeeeeeeeceeeEecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccc
Confidence            345566677666522                 13568999999999999999999877653211  10 001111     


Q ss_pred             ----ec----CCCChhHHHHHHHHHhCC-------------C--------CCCC-CHHHHHHHHHHHhhhcCCCcEEEEE
Q 038205          181 ----VS----QDPSIINVQSELVKSLGW-------------A--------LTEK-DEEDRADRLRLMFSESKSRKILVIL  230 (375)
Q Consensus       181 ----~~----~~~~~~~~~~~i~~~l~~-------------~--------~~~~-~~~~~~~~l~~~~~~l~~kr~LlVl  230 (375)
                          ++    ..++-..++.++.+..+.             .        ..+. +...-...|.+   .+..+.-+++.
T Consensus       455 ~~a~iPge~Ep~f~~~tilehl~s~tGD~~~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAk---llaerpn~~~i  531 (593)
T COG2401         455 VSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAK---LLAERPNVLLI  531 (593)
T ss_pred             hhhccCcccccccCchhHHHHHhhccCchhHHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHH---HHhcCCCcEEh
Confidence                11    112222455544443332             1        0111 11122233444   77778789999


Q ss_pred             eCCCCc-ccccc--cCCCCC--CCCCCcEEEEEeCChhHHhhhCCCCcc
Q 038205          231 DDVWKE-LDLET--IGIPVG--DRDNCCKILLTTRLQQVCYRMGCDPRI  274 (375)
Q Consensus       231 Ddv~~~-~~~~~--l~~~l~--~~~~gs~IivTTr~~~v~~~~~~~~~~  274 (375)
                      |..... +....  +...+.  ....|+.+++.|+.+++.+.+.++..+
T Consensus       532 DEF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~li  580 (593)
T COG2401         532 DEFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDTLI  580 (593)
T ss_pred             hhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCceeE
Confidence            987643 11111  111111  123578888888888888777665443

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.79  E-value=0.018  Score=53.33  Aligned_cols=46  Identities=17%  Similarity=0.190  Sum_probs=35.2

Q ss_pred             CCccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          122 SSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..++|+...+.++.+.+..  ....-|.|+|..|+||+++|+.+....
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            4567877777777776632  344678999999999999999987643

>PRK13409 putative ATPase RIL; Provisional

Probab=96.79  E-value=0.0058  Score=61.25  Aligned_cols=28  Identities=36%  Similarity=0.597  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        97 ~~Gev~gLvG~NGaGKSTLlkiL~G~l~  124 (590)
T PRK13409         97 KEGKVTGILGPNGIGKTTAVKILSGELI  124 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            3567999999999999999999987654

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.78  E-value=0.004  Score=62.75  Aligned_cols=28  Identities=25%  Similarity=0.434  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .....++|+|++|+|||||++.+.....
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl~~  386 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRVFD  386 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            4567999999999999999999976654

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.77  E-value=0.0067  Score=62.56  Aligned_cols=28  Identities=36%  Similarity=0.507  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~~  530 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLYQ  530 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4577999999999999999999977654

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.76  E-value=0.0041  Score=62.41  Aligned_cols=28  Identities=29%  Similarity=0.468  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       356 ~~G~~v~IvG~sGsGKSTLl~lL~gl~~  383 (571)
T TIGR02203       356 EPGETVALVGRSGSGKSTLVNLIPRFYE  383 (571)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            4578999999999999999999877654

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>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=96.76  E-value=0.0037  Score=54.78  Aligned_cols=57  Identities=21%  Similarity=0.278  Sum_probs=36.4

Q ss_pred             HHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          130 ACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       130 ~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      ....+++.+..  ++..+|+|.|++|+|||||...+.......++--.++-+.-+++++
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~t   72 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFT   72 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCC
Confidence            44555555543  4578999999999999999999998888654433344444444443

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.76  E-value=0.0044  Score=60.33  Aligned_cols=88  Identities=16%  Similarity=0.222  Sum_probs=49.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCCCChhHHHHHHHHHhCC-----CCCCCCHH-----H
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQDPSIINVQSELVKSLGW-----ALTEKDEE-----D  209 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l~~-----~~~~~~~~-----~  209 (375)
                      ...+..+|+|++|+|||||++.+.+.....+ -++ ++.+-+...+...   .++.+.+..     ..+.....     .
T Consensus       414 GkGQR~LIvgpp~aGKTtLL~~IAn~i~~n~-~~~~~ivvLIgERpeEV---tdm~rsVkgeVVasT~D~p~~~~~~~a~  489 (672)
T PRK12678        414 GKGQRGLIVSPPKAGKTTILQNIANAITTNN-PECHLMVVLVDERPEEV---TDMQRSVKGEVIASTFDRPPSDHTTVAE  489 (672)
T ss_pred             ccCCEeEEeCCCCCCHHHHHHHHHHHHhhcC-CCeEEEEEEEeCchhhH---HHHHHhccceEEEECCCCCHHHHHHHHH
Confidence            4577899999999999999999998775422 222 2344455443222   222222211     11111111     1


Q ss_pred             HHHHHHHHhhhc--CCCcEEEEEeCCCC
Q 038205          210 RADRLRLMFSES--KSRKILVILDDVWK  235 (375)
Q Consensus       210 ~~~~l~~~~~~l--~~kr~LlVlDdv~~  235 (375)
                      ....+.+   ++  .++.+||++|++..
T Consensus       490 ~ai~~Ae---~fre~G~dVlillDSlTR  514 (672)
T PRK12678        490 LAIERAK---RLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHH---HHHHcCCCEEEEEeCchH
Confidence            1122233   33  67999999999853

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.76  E-value=0.21  Score=47.14  Aligned_cols=58  Identities=24%  Similarity=0.304  Sum_probs=36.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGW  200 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  200 (375)
                      .+.+|-.+|.-|+||||.+..+++.++.+ .+..-+..+--..+...+-++.+..+++.
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~-~~kvllVaaD~~RpAA~eQL~~La~q~~v  156 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKK-GKKVLLVAADTYRPAAIEQLKQLAEQVGV  156 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHc-CCceEEEecccCChHHHHHHHHHHHHcCC
Confidence            36789999999999999999998888762 22222222222233444555555555543

>PRK06762 hypothetical protein; Provisional

Probab=96.75  E-value=0.0013  Score=54.58  Aligned_cols=25  Identities=40%  Similarity=0.598  Sum_probs=22.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.+|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876

>PRK09354 recA recombinase A; Provisional

Probab=96.75  E-value=0.0078  Score=55.64  Aligned_cols=84  Identities=18%  Similarity=0.156  Sum_probs=53.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCC------CCCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWAL------TEKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+|||||+.++.......  -..++|+.....++.     ..+++++.+.      ...+.++....+.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~-----~~a~~lGvdld~lli~qp~~~Eq~l~i~~  131 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP-----VYAKKLGVDIDNLLVSQPDTGEQALEIAD  131 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHH-----HHHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            46799999999999999999987665533  345678877666554     3455555321      1223344444444


Q ss_pred             HHhhhc-CCCcEEEEEeCCCC
Q 038205          216 LMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      .   .+ .+..-++|+|.+..
T Consensus       132 ~---li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        132 T---LVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             H---HhhcCCCCEEEEeChhh
Confidence            4   23 24566999998753

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.0056  Score=56.83  Aligned_cols=95  Identities=19%  Similarity=0.211  Sum_probs=55.5

Q ss_pred             HHHHHHHhcC--CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCC--CH
Q 038205          132 NQIIEALKKD--STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEK--DE  207 (375)
Q Consensus       132 ~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~  207 (375)
                      .++-+.|..+  ...+|.|-|.+|+|||||.-++..+...+.   .+.+|+......   -.+--+++++.+....  -.
T Consensus        80 ~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES~~---QiklRA~RL~~~~~~l~l~a  153 (456)
T COG1066          80 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEESLQ---QIKLRADRLGLPTNNLYLLA  153 (456)
T ss_pred             HHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcCHH---HHHHHHHHhCCCccceEEeh
Confidence            3344444332  357999999999999999999999888653   566665544322   2233345565433211  01


Q ss_pred             HHHHHHHHHHhhhc-CCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      +...+.+..   .+ ..++-|+|+|.++.
T Consensus       154 Et~~e~I~~---~l~~~~p~lvVIDSIQT  179 (456)
T COG1066         154 ETNLEDIIA---ELEQEKPDLVVIDSIQT  179 (456)
T ss_pred             hcCHHHHHH---HHHhcCCCEEEEeccce
Confidence            111122222   33 35888999998754

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.75  E-value=0.011  Score=54.94  Aligned_cols=93  Identities=14%  Similarity=0.075  Sum_probs=56.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh---c-CCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ---N-NIFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~-~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++-|+|++|+|||+|+..++-....   . ..-..++|+.....+.+..+ .+++++++....          ..+.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~  200 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNT  200 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCH
Confidence            3678899999999999999887754321   1 11236889998888777655 456666654321          1122


Q ss_pred             HHHHHHHHHHhhhc-CCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      +.....+......+ ..+--|||+|.+..
T Consensus       201 e~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        201 DHQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence            33333333322223 23556999998753

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.75  E-value=0.0028  Score=55.19  Aligned_cols=25  Identities=32%  Similarity=0.550  Sum_probs=22.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +|+|.|++|+||||||+.+......
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            5899999999999999999988753

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

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.74  E-value=0.002  Score=54.09  Aligned_cols=130  Identities=21%  Similarity=0.227  Sum_probs=67.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-------ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-------SIINVQSELVKSLGWALTEKDEEDRADRLRL  216 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-------~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~  216 (375)
                      +.|.+.|.+|+||||+|+.+....+....  .++  +++.+.       ....+.++-.....       .+.....+-.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~--~vi--~l~kdy~~~i~~DEslpi~ke~yres~-------~ks~~rlldS   70 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIW--RVI--HLEKDYLRGILWDESLPILKEVYRESF-------LKSVERLLDS   70 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhh--hcc--ccchhhhhheecccccchHHHHHHHHH-------HHHHHHHHHH
Confidence            46788999999999999999988875311  111  011100       00111111111110       0111112222


Q ss_pred             HhhhcCCCcEEEEEeCCCCcccccc-cCCCCCCCCCCcEEEEEeCChhHHhhhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          217 MFSESKSRKILVILDDVWKELDLET-IGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       217 ~~~~l~~kr~LlVlDdv~~~~~~~~-l~~~l~~~~~gs~IivTTr~~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                         +++  .+++|.||......+.. +...-......-.||-+-...+.|...+.   -+-+|.+++-..+|..+.-
T Consensus        71 ---alk--n~~VIvDdtNYyksmRrqL~ceak~~~tt~ciIyl~~plDtc~rrN~---ergepip~Evl~qly~RfE  139 (261)
T COG4088          71 ---ALK--NYLVIVDDTNYYKSMRRQLACEAKERKTTWCIIYLRTPLDTCLRRNR---ERGEPIPEEVLRQLYDRFE  139 (261)
T ss_pred             ---Hhc--ceEEEEecccHHHHHHHHHHHHHHhcCCceEEEEEccCHHHHHHhhc---cCCCCCCHHHHHHHHHhhc
Confidence               443  89999999865432221 11111111223457777667777766553   3456777777777776654

>PRK13409 putative ATPase RIL; Provisional

Probab=96.73  E-value=0.0064  Score=60.95  Aligned_cols=28  Identities=36%  Similarity=0.671  Sum_probs=24.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus       363 ~~Geiv~l~G~NGsGKSTLlk~L~Gl~~  390 (590)
T PRK13409        363 YEGEVIGIVGPNGIGKTTFAKLLAGVLK  390 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3467999999999999999999998765

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

Probab=96.73  E-value=0.0032  Score=55.97  Aligned_cols=60  Identities=23%  Similarity=0.334  Sum_probs=43.8

Q ss_pred             HHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHH
Q 038205          132 NQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQ  191 (375)
Q Consensus       132 ~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  191 (375)
                      .+|+..+.  .++..+|+|.|+||+|||||...+...+..+++--.++-|.-|+.++--.++
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            45555553  3567899999999999999999999998876665556666656666544444

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.72  E-value=0.0018  Score=56.28  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      +++.|.|++|.||||+.+.+..
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999999854

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 sliding clam

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.72  E-value=0.0065  Score=60.91  Aligned_cols=28  Identities=29%  Similarity=0.576  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~~  366 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHFD  366 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            4578999999999999999999977654

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.71  E-value=0.012  Score=54.13  Aligned_cols=57  Identities=12%  Similarity=0.156  Sum_probs=40.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      ...++-|+|++|+|||+++.+++.......    .-..++|+.....++...+. ++++.++
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~g  154 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARG  154 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcC
Confidence            467899999999999999999976643211    11368899887777766544 4455444

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.70  E-value=0.0015  Score=55.22  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=22.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .++|.|.|++|+||||+++.+....
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998765

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.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.68  E-value=0.0061  Score=61.20  Aligned_cols=28  Identities=29%  Similarity=0.431  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~~~  391 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRAWD  391 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4577999999999999999999987654

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.68  E-value=0.0018  Score=56.64  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..|.|.|++|+||||+|+.+.....
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3489999999999999999988765

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.68  E-value=0.004  Score=49.28  Aligned_cols=41  Identities=34%  Similarity=0.283  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          129 SACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       129 ~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ++..++-+.+..  ....+|.+.|+.|+||||+++.+......
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            344445454433  34569999999999999999999988754

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.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.66  E-value=0.011  Score=58.63  Aligned_cols=28  Identities=32%  Similarity=0.506  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus       343 ~~Ge~~~l~G~NGsGKSTLl~~i~G~~~  370 (530)
T PRK15064        343 EAGERLAIIGENGVGKTTLLRTLVGELE  370 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999987654

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.66  E-value=0.0028  Score=62.07  Aligned_cols=59  Identities=20%  Similarity=0.378  Sum_probs=43.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      |.......-...-++++..||..     ...+++.+.||+|+||||+++.+++...    |+..-|.+
T Consensus        15 P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~n   78 (519)
T PF03215_consen   15 PKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWIN   78 (519)
T ss_pred             CCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecC
Confidence            34444455566778888888854     2357899999999999999999998875    56666754

>PRK08149 ATP synthase SpaL; Validated

Probab=96.65  E-value=0.014  Score=55.56  Aligned_cols=90  Identities=16%  Similarity=0.254  Sum_probs=53.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-CChhHHHHHHHHHhCC-------CCCCCCH-----
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-PSIINVQSELVKSLGW-------ALTEKDE-----  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~-------~~~~~~~-----  207 (375)
                      .....++|+|++|+|||||+..+++....    +.++...+... .+...+..+.......       ...+.+.     
T Consensus       149 ~~Gq~i~I~G~sG~GKTTLl~~i~~~~~~----dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~  224 (428)
T PRK08149        149 GVGQRMGIFASAGCGKTSLMNMLIEHSEA----DVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCN  224 (428)
T ss_pred             ecCCEEEEECCCCCChhHHHHHHhcCCCC----CeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHh
Confidence            35679999999999999999999875542    23333444433 3455555555553221       1111111     


Q ss_pred             -HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 -EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 -~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       ......+.+++. -+++++||++||+..
T Consensus       225 a~~~a~tiAE~fr-~~G~~Vll~~DslTr  252 (428)
T PRK08149        225 AALVATTVAEYFR-DQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHH-HcCCCEEEEccchHH
Confidence             122334445443 258999999999854

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.65  E-value=0.069  Score=46.42  Aligned_cols=146  Identities=17%  Similarity=0.246  Sum_probs=78.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-h
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-E  220 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~  220 (375)
                      ++.-+.++||+|.|||-||+.|++...       +.|+.+|..    ++.+..   ++         +...++++++- +
T Consensus       180 QPKGvlLygppgtGktLlaraVahht~-------c~firvsgs----elvqk~---ig---------egsrmvrelfvma  236 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHHTD-------CTFIRVSGS----ELVQKY---IG---------EGSRMVRELFVMA  236 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhhcc-------eEEEEechH----HHHHHH---hh---------hhHHHHHHHHHHH
Confidence            467789999999999999999998543       345555542    222211   11         11122222211 3


Q ss_pred             cCCCcEEEEEeCCCCcc----------------cccccCCCCCC--CCCCcEEEEEeCChhHHhh-----hCCCCcccCC
Q 038205          221 SKSRKILVILDDVWKEL----------------DLETIGIPVGD--RDNCCKILLTTRLQQVCYR-----MGCDPRIKLD  277 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~--~~~gs~IivTTr~~~v~~~-----~~~~~~~~l~  277 (375)
                      -..-+-++..|++++..                ..-++...+..  ..++.+||+.|..-++...     -..+..++..
T Consensus       237 rehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp  316 (404)
T KOG0728|consen  237 REHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFP  316 (404)
T ss_pred             HhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCC
Confidence            33467788888876421                01111122221  2355788887765444322     2233678888


Q ss_pred             CCChHHHHHHHHHHcC--CCCCCCCchHHHHHHHH
Q 038205          278 ALDQAEGLDLLRKHAG--IDVADKTMTDVSKRVAD  310 (375)
Q Consensus       278 ~L~~~e~~~Lf~~~~~--~~~~~~~~~~~~~~i~~  310 (375)
                      +-+.+.-.++++-+.-  +-..-..+..+++++.-
T Consensus       317 ~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~g  351 (404)
T KOG0728|consen  317 PPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPG  351 (404)
T ss_pred             CCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCC
Confidence            8787777777765542  11112344555554433

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.64  E-value=0.0034  Score=60.25  Aligned_cols=51  Identities=18%  Similarity=0.193  Sum_probs=40.9

Q ss_pred             CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc
Q 038205          122 SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD  174 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~  174 (375)
                      ..++||++.++.+...+..+  .-|.|.|++|+|||++|+.+.........|.
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            35789999999999888655  4788999999999999999998765433443

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.64  E-value=0.019  Score=53.02  Aligned_cols=57  Identities=14%  Similarity=0.197  Sum_probs=40.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLG  199 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~  199 (375)
                      ...++-|+|++|+|||+++.+++.......    .-..++|++....++...+. ++++.++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcC
Confidence            467899999999999999999976543211    11468899887777665544 4445554

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.64  E-value=0.0046  Score=55.46  Aligned_cols=26  Identities=38%  Similarity=0.382  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.|.|+|.+|+||||+|+.+......
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            47899999999999999999998775

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=96.64  E-value=0.01  Score=60.47  Aligned_cols=28  Identities=25%  Similarity=0.411  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .....++|+|++|+|||||++.+.....
T Consensus       476 ~~Ge~~~IvG~nGsGKSTLl~lL~Gl~~  503 (659)
T TIGR00954       476 PSGNHLLICGPNGCGKSSLFRILGELWP  503 (659)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999988754

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.64  E-value=0.0073  Score=57.88  Aligned_cols=27  Identities=26%  Similarity=0.409  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..+|+|++|+||||+.+.++...-
T Consensus       100 ~g~rygLiG~nG~Gkst~L~~i~~~e~  126 (614)
T KOG0927|consen  100 RGRRYGLIGPNGSGKSTFLRAIAGREV  126 (614)
T ss_pred             CCceEEEEcCCCCcHhHHHHHHhcCCC
Confidence            467899999999999999999988754

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.63  E-value=0.019  Score=54.86  Aligned_cols=89  Identities=16%  Similarity=0.270  Sum_probs=53.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H----
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E----  208 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~----  208 (375)
                      ..+.++|+|++|+|||||++.+++....    +.++++-+.... ...++..+.+..-+.       ...+.+. .    
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~~----d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNADA----DVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCC----CEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            5679999999999999999999876653    344445555443 444555444433221       1111211 1    


Q ss_pred             -HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 -DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 -~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       .....+.+++.. +++.+||++||+..
T Consensus       233 ~~~a~tiAEyfrd-~G~~Vll~~DslTr  259 (442)
T PRK08927        233 AYLTLAIAEYFRD-QGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHH-CCCcEEEEEeCcHH
Confidence             122334453332 58999999999854

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.62  E-value=0.014  Score=48.30  Aligned_cols=27  Identities=26%  Similarity=0.466  Sum_probs=23.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|.|++|.|||||...|+.-..
T Consensus        24 ~ge~vAi~GpSGaGKSTLLnLIAGF~~   50 (231)
T COG3840          24 AGEIVAILGPSGAGKSTLLNLIAGFET   50 (231)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhccC
Confidence            467999999999999999999876543

>PRK03839 putative kinase; Provisional

Probab=96.62  E-value=0.0017  Score=54.63  Aligned_cols=24  Identities=38%  Similarity=0.735  Sum_probs=22.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+++.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999999875

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.62  E-value=0.0018  Score=55.39  Aligned_cols=28  Identities=39%  Similarity=0.548  Sum_probs=24.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+|+|.|.+|+||||+|+.+......
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~   34 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGV   34 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            3468999999999999999999998874

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.62  E-value=0.032  Score=49.17  Aligned_cols=48  Identities=17%  Similarity=0.080  Sum_probs=33.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      ...++.|.|++|+|||+++.++....-.+  -..++|++...  +...+.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHH
Confidence            46799999999999999999876554322  34566776544  44455544

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

>PF13245 AAA_19: Part of AAA domain

Probab=96.62  E-value=0.0066  Score=43.05  Aligned_cols=26  Identities=35%  Similarity=0.484  Sum_probs=19.0

Q ss_pred             CCcEEEEEcCCCchHHH-HHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTT-LAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTt-La~~v~~~~  167 (375)
                      +.+++.|.|++|+|||+ ++..+....
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            45688889999999995 555554444

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.61  E-value=0.0014  Score=56.09  Aligned_cols=23  Identities=43%  Similarity=0.651  Sum_probs=21.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +|+|.|++|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=96.61  E-value=0.015  Score=59.92  Aligned_cols=29  Identities=31%  Similarity=0.491  Sum_probs=25.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p  533 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLYQP  533 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccCC
Confidence            45789999999999999999999876653

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=96.60  E-value=0.0096  Score=61.25  Aligned_cols=28  Identities=29%  Similarity=0.552  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       481 ~~G~~vaivG~sGsGKSTL~~ll~g~~~  508 (694)
T TIGR01846       481 KPGEFIGIVGPSGSGKSTLTKLLQRLYT  508 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4567999999999999999999977654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

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

Probab=96.60  E-value=0.0027  Score=54.79  Aligned_cols=28  Identities=29%  Similarity=0.559  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        31 ~~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          31 ERGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            4567999999999999999999976554

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

Probab=96.60  E-value=0.0019  Score=54.31  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++.|+|++|+|||||++.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=96.59  E-value=0.009  Score=61.60  Aligned_cols=28  Identities=29%  Similarity=0.461  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       498 ~~G~~vaIvG~SGsGKSTLlklL~gl~~  525 (708)
T TIGR01193       498 KMNSKTTIVGMSGSGKSTLAKLLVGFFQ  525 (708)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            4568999999999999999999976654

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.59  E-value=0.018  Score=52.91  Aligned_cols=90  Identities=18%  Similarity=0.298  Sum_probs=52.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec-CCCChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS-QDPSIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|+|++|+|||||++.+.+....    +..+...+. ...+...+.......-+.       ...+.+. .   
T Consensus        67 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~~~----~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~  142 (326)
T cd01136          67 GKGQRLGIFAGSGVGKSTLLGMIARGTTA----DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVK  142 (326)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhCCCCC----CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHH
Confidence            45678999999999999999999876653    223333333 334555555555443221       1111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++.. +++.+||++||+..
T Consensus       143 ~~~~a~~~AEyfr~-~g~~Vll~~Dsltr  170 (326)
T cd01136         143 AAYTATAIAEYFRD-QGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHH-cCCCeEEEeccchH
Confidence              122334443332 58999999999754

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.58  E-value=0.0089  Score=57.05  Aligned_cols=91  Identities=15%  Similarity=0.176  Sum_probs=51.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhC-----CC-CCCCCH------H
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLG-----WA-LTEKDE------E  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-----~~-~~~~~~------~  208 (375)
                      .....++|+|++|+|||||++.+......   ...+++.......++..+....+....     .- ..+.+.      .
T Consensus       163 ~~Gqri~I~G~SGsGKTTLL~~Ia~l~~p---d~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~  239 (450)
T PRK06002        163 CAGQRIGIFAGSGVGKSTLLAMLARADAF---DTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAP  239 (450)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCC---CeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHH
Confidence            34679999999999999999988775542   223444433344455544443333221     10 111111      1


Q ss_pred             HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 ~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      .....+.+++.. +++.+||++||+..
T Consensus       240 ~~a~~iAEyfrd-~G~~Vll~~DslTr  265 (450)
T PRK06002        240 LTATAIAEYFRD-RGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHH-cCCCEEEeccchHH
Confidence            122334443332 58999999999853

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.58  E-value=0.014  Score=49.98  Aligned_cols=126  Identities=18%  Similarity=0.145  Sum_probs=66.1

Q ss_pred             HHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCCCChhH-----HHHHHHHHhCCCCCCCCH
Q 038205          134 IIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQDPSIIN-----VQSELVKSLGWALTEKDE  207 (375)
Q Consensus       134 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~-----~~~~i~~~l~~~~~~~~~  207 (375)
                      ++..+-+...--..|.|++|+|||||.+.+++..... ..|...-.+-+.....+..     -...+..+..........
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~  207 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKA  207 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHH
Confidence            4444444444447899999999999999998877643 2343321111211111100     011111111111111111


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhhh
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRM  268 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~  268 (375)
                      +-+...++.      ..+=++|.|++-..++-..+...+   ..|.+++.|.+-..+...+
T Consensus       208 ~gmmmaIrs------m~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~~iedl~  259 (308)
T COG3854         208 EGMMMAIRS------MSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGNGIEDLI  259 (308)
T ss_pred             HHHHHHHHh------cCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccccHHHhh
Confidence            222222222      357799999998776655554443   4678999998865554443

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.57  E-value=0.0049  Score=61.76  Aligned_cols=84  Identities=19%  Similarity=0.227  Sum_probs=59.8

Q ss_pred             cccccC-CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHH
Q 038205          112 DKEMPI-PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINV  190 (375)
Q Consensus       112 ~~~~~~-~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  190 (375)
                      .+.+.+ |..+..+.|.++.++.|...+...  +.+.++|++|+||||+++.+...... ..++..+|..- ...+...+
T Consensus        20 ~~~~~~~~~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~   95 (637)
T PRK13765         20 TSDIEVPERLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPK   95 (637)
T ss_pred             ceecccCcccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHH
Confidence            344444 444567889999988888777655  47999999999999999999887642 34566777654 33466666


Q ss_pred             HHHHHHHhC
Q 038205          191 QSELVKSLG  199 (375)
Q Consensus       191 ~~~i~~~l~  199 (375)
                      ++.++..++
T Consensus        96 ~~~v~~~~G  104 (637)
T PRK13765         96 IRTVPAGKG  104 (637)
T ss_pred             HHHHHHhcC
Confidence            776666554

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.57  E-value=0.019  Score=54.86  Aligned_cols=94  Identities=18%  Similarity=0.229  Sum_probs=59.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-CChhHHHHHHHHHhCCC-------CCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-PSIINVQSELVKSLGWA-------LTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~-~---  208 (375)
                      ...+.++|.|.+|+|||||+.++........ -..++++-+... ....+++.++...-...       ..+.+. .   
T Consensus       141 g~GQr~~If~~~G~GKt~L~~~~~~~~~~~~-~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       141 AKGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             ccCCEEEeecCCCCChHHHHHHHHHHHHhcC-CCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            3578999999999999999999887765322 235666666544 35566666665431111       111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++..-+++.+||++||+..
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhH
Confidence              123445564444467999999999854

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.56  E-value=0.0088  Score=57.45  Aligned_cols=42  Identities=24%  Similarity=0.405  Sum_probs=32.9

Q ss_pred             hHHHHHHHHHHHh-----cC--CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          127 TESACNQIIEALK-----KD--STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       127 r~~~~~~l~~~l~-----~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+.++..||.     .+  +.+++.|.||+|+||||.++.+.....
T Consensus        87 HkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg  135 (634)
T KOG1970|consen   87 HKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELG  135 (634)
T ss_pred             hHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhC
Confidence            3455677777776     33  356999999999999999999988765

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.56  E-value=0.016  Score=55.50  Aligned_cols=94  Identities=15%  Similarity=0.203  Sum_probs=59.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|.|.+|+|||+|+.++....... +-+.++++-+.... ...++++++...-..       ...+.+. .   
T Consensus       136 gkGQr~~Ifg~~G~GKt~l~~~~~~~~~~~-~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       136 ERGGKAGLFGGAGVGKTVLLTEMIHNMVGQ-HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            357899999999999999999988775532 23567777776554 445555555543111       0111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++..-+++.+||++||+..
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHH
Confidence              223345554444467999999999854

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.55  E-value=0.015  Score=52.29  Aligned_cols=38  Identities=29%  Similarity=0.423  Sum_probs=28.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      +.+++.++|++|+||||++..++......+  ..+.++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g--~~V~li~~  108 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQG--KSVLLAAG  108 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcC--CEEEEEeC
Confidence            467999999999999999999988776432  24445543

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.

>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=96.55  E-value=0.0035  Score=51.04  Aligned_cols=35  Identities=37%  Similarity=0.408  Sum_probs=27.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEE
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIA  179 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  179 (375)
                      +.+|-|.|.+|+||||||+.+...+...+  ..+.++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g--~~~~~L   36 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARG--IKVYLL   36 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTT--S-EEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcC--CcEEEe
Confidence            45899999999999999999999998653  334444

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 ....

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=96.54  E-value=0.0095  Score=57.24  Aligned_cols=95  Identities=15%  Similarity=0.085  Sum_probs=57.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc--EEEEEEecCC-CChhHHHHHHHHHhCCC-------CCCCCH---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD--KVGIATVSQD-PSIINVQSELVKSLGWA-------LTEKDE---  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~---  207 (375)
                      ...+.++|.|..|+|||||+.++.+.....+.+.  .++++-+.+. ....+++..+...=...       ..+.+.   
T Consensus       139 g~GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R  218 (458)
T TIGR01041       139 VRGQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVER  218 (458)
T ss_pred             ccCCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHH
Confidence            3568999999999999999999988765431111  3455555544 45556666665432111       111111   


Q ss_pred             ---HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 ---EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ---~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                         ......+.+++..-+++++||++||+..
T Consensus       219 ~~a~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       219 IVTPRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence               1223345565443467999999999854

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.54  E-value=0.028  Score=49.17  Aligned_cols=40  Identities=23%  Similarity=0.190  Sum_probs=29.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ  183 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  183 (375)
                      ....+.|.|++|+|||||+.++.......  -..++|++...
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~   58 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEE   58 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccC
Confidence            46799999999999999999876544322  23567776543

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

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.54  E-value=0.14  Score=47.09  Aligned_cols=47  Identities=19%  Similarity=0.143  Sum_probs=34.1

Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCC--CCchHHHHHHHHHcCCchhHH
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVAD--KTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~--~~~~~~~~~i~~~~~glPlai  319 (375)
                      ++++++++.+|+..++..+.......  ...+...+++....+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            78999999999999999876422211  333556677777779999654

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.54  E-value=0.0029  Score=62.52  Aligned_cols=50  Identities=28%  Similarity=0.343  Sum_probs=41.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      |..+..++|.+..+..+...+.......+.|+|++|+|||++|+.+++..
T Consensus        61 p~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        61 PKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             cCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            44556788999999999887766666788999999999999999998754

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.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=96.54  E-value=0.0053  Score=59.56  Aligned_cols=125  Identities=19%  Similarity=0.202  Sum_probs=0.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCCCChhHHHH---------------------------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQDPSIINVQS---------------------------  192 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~---------------------------  192 (375)
                      ....+++|+|.+|+||||++..+..-.... ......+-.....-.....--.                           
T Consensus        33 ~~GE~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g~dl~~l~~~~~r~~rg~~Ia~i~Q~p~~slnP~~tIg~  112 (539)
T COG1123          33 EPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMTSLNPVMTIGD  112 (539)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECCcchhcCCHHHHHHhccccEEEEecCchhhcCchhhHHH


Q ss_pred             ----------------------HHHHHhCCCCCCCC---------HHHHHHHHHHHhhhcCCCcEEEEEe------CCCC
Q 038205          193 ----------------------ELVKSLGWALTEKD---------EEDRADRLRLMFSESKSRKILVILD------DVWK  235 (375)
Q Consensus       193 ----------------------~i~~~l~~~~~~~~---------~~~~~~~l~~~~~~l~~kr~LlVlD------dv~~  235 (375)
                                            ++++.++.+.....         .....-.+.-   ++..++-|||+|      |+..
T Consensus       113 Qi~E~~~~h~~~~~~ea~~~a~elL~~Vgl~~~~~~~~yPheLSGG~rQRv~iAm---ALa~~P~LLIaDEPTTaLDvt~  189 (539)
T COG1123         113 QIREALRLHGKGSRAEARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAM---ALALKPKLLIADEPTTALDVTT  189 (539)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHcCCCChhhhccCCcccCchHHHHHHHHH---HHhCCCCEEEECCCccccCHHH


Q ss_pred             cccccccCCCCCCCCCCcEEEEEeCChhHHhhhC
Q 038205          236 ELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMG  269 (375)
Q Consensus       236 ~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~  269 (375)
                      ..+.-++...+. ...|..+|++|++..+...+.
T Consensus       190 q~qIL~llk~l~-~e~g~a~l~ITHDl~Vva~~a  222 (539)
T COG1123         190 QAQILDLLKDLQ-RELGMAVLFITHDLGVVAELA  222 (539)
T ss_pred             HHHHHHHHHHHH-HHcCcEEEEEcCCHHHHHHhc

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

Probab=96.54  E-value=0.0017  Score=49.51  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=20.8

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      |-|+|++|+|||++|+.+......
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999998877663

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

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.53  E-value=0.016  Score=51.60  Aligned_cols=96  Identities=18%  Similarity=0.158  Sum_probs=55.0

Q ss_pred             CCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCccEE-EEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H--
Q 038205          142 STKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFDKV-GIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E--  208 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~~-~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~--  208 (375)
                      ..+.++|.|.+|+|||+|+ ..+.+...    -+.+ +++-+.+.. ...++.+.+...-..       ...+.+. .  
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~~----~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQKG----KKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhcC----CCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            5689999999999999995 55655432    2333 555555543 455555555532111       1111111 1  


Q ss_pred             ---HHHHHHHHHhhhcCCCcEEEEEeCCCCc-cccccc
Q 038205          209 ---DRADRLRLMFSESKSRKILVILDDVWKE-LDLETI  242 (375)
Q Consensus       209 ---~~~~~l~~~~~~l~~kr~LlVlDdv~~~-~~~~~l  242 (375)
                         ...-.+.+++.. +++.+||++||+... ..++++
T Consensus       144 ~a~~~a~aiAE~fr~-~G~~Vlvl~DslTr~A~A~rEi  180 (274)
T cd01132         144 LAPYTGCAMGEYFMD-NGKHALIIYDDLSKQAVAYRQM  180 (274)
T ss_pred             HHHHHHHHHHHHHHH-CCCCEEEEEcChHHHHHHHHHH
Confidence               122344554434 589999999999654 344444

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=96.53  E-value=0.0099  Score=56.66  Aligned_cols=45  Identities=27%  Similarity=0.219  Sum_probs=33.1

Q ss_pred             ccchHHHHHHHHHHHhc-------C---------CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALKK-------D---------STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~-------~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.+..++.+...+.+       .         ....+.++|++|+|||++|+.+.....
T Consensus        73 ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         73 VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            57888877777544311       0         135689999999999999999987654

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.53  E-value=0.019  Score=54.79  Aligned_cols=90  Identities=17%  Similarity=0.256  Sum_probs=55.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCHH----
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDEE----  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~----  208 (375)
                      ...+.++|.|++|+|||||++.+++....    +.++++-+.... ...++....+..-+.       ...+.+..    
T Consensus       160 ~~Gq~~~I~G~sG~GKStLl~~Ia~~~~~----dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        160 GEGQRMGIFAAAGGGKSTLLASLIRSAEV----DVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhcCCCC----CEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            35679999999999999999999987653    456666665543 444444443322111       11112221    


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++.. +++++||++|++..
T Consensus       236 a~~~a~tiAEyfrd-~G~~Vll~~DslTR  263 (439)
T PRK06936        236 AGFVATSIAEYFRD-QGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHHHHHH-cCCCEEEeccchhH
Confidence              122345554433 58999999999854

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

Probab=96.52  E-value=0.0026  Score=51.08  Aligned_cols=39  Identities=26%  Similarity=0.342  Sum_probs=28.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ  183 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  183 (375)
                      ++|.|+|+.|+|||||++.+.+....++ +...+......
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g-~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRG-YRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcC-CceEEEEEccC
Confidence            4799999999999999999999987643 44444555444

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.52  E-value=0.017  Score=53.38  Aligned_cols=37  Identities=24%  Similarity=0.284  Sum_probs=28.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      ..-+.++|++|+|||.||..+++..-..+  ..+++++.
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~  219 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTA  219 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEH
Confidence            36799999999999999999999886442  24555543

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.52  E-value=0.0021  Score=54.03  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ++|+|+|++|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            589999999999999999999854

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=96.52  E-value=0.0042  Score=61.95  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       347 ~~G~~~aivG~sGsGKSTL~~ll~g~~~  374 (547)
T PRK10522        347 KRGELLFLIGGNGSGKSTLAMLLTGLYQ  374 (547)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999976554

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.52  E-value=0.019  Score=55.02  Aligned_cols=94  Identities=18%  Similarity=0.234  Sum_probs=58.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      ...+.++|.|.+|+|||||+.++........ -..++++-+.... ...++++++...-..       ...+.+. .   
T Consensus       142 gkGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        142 AKGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            4578999999999999999999877765432 2356666665543 555666666543211       1111212 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++..-+++.+||++|++..
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence              223345554434478999999999853

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.51  E-value=0.0024  Score=54.94  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|+|+|++|+|||||++.+.....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            457999999999999999999998753

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.51  E-value=0.0057  Score=54.97  Aligned_cols=37  Identities=22%  Similarity=0.173  Sum_probs=30.2

Q ss_pred             HHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          133 QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       133 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++...+..++.|.|++|+|||||+..+.+....
T Consensus        94 ~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463         94 RNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             HHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3444455567889999999999999999999998764

>PRK05922 type III secretion system ATPase; Validated

Probab=96.51  E-value=0.022  Score=54.36  Aligned_cols=90  Identities=14%  Similarity=0.225  Sum_probs=52.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC-------CCCCCH-----
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA-------LTEKDE-----  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~~~-----  207 (375)
                      .....++|+|++|+|||||++.+.+....    +....+.+.. .......+.+........       ..+.+.     
T Consensus       155 ~~GqrigI~G~nG~GKSTLL~~Ia~~~~~----d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~  230 (434)
T PRK05922        155 GKGQRIGVFSEPGSGKSSLLSTIAKGSKS----TINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVI  230 (434)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccCCC----CceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHH
Confidence            45678999999999999999999876542    2223332332 334445555544333221       111111     


Q ss_pred             -HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 -EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 -~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       ......+.+++. -+++++||++||+..
T Consensus       231 a~~~a~tiAEyfr-d~G~~VLl~~DslTR  258 (434)
T PRK05922        231 AGRAAMTIAEYFR-DQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHH-HcCCCEEEeccchhH
Confidence             122233445433 257999999999854

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.50  E-value=0.0029  Score=52.48  Aligned_cols=29  Identities=28%  Similarity=0.311  Sum_probs=25.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...+++|+|++|+|||||++.+......+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45689999999999999999999888753

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.50  E-value=0.0045  Score=55.67  Aligned_cols=37  Identities=27%  Similarity=0.345  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          132 NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       132 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+++.+... .+-+.++|++|+|||++++........
T Consensus        23 ~~ll~~l~~~-~~pvLl~G~~GtGKT~li~~~l~~l~~   59 (272)
T PF12775_consen   23 SYLLDLLLSN-GRPVLLVGPSGTGKTSLIQNFLSSLDS   59 (272)
T ss_dssp             HHHHHHHHHC-TEEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHc-CCcEEEECCCCCchhHHHHhhhccCCc
Confidence            3444444443 457799999999999999998876543

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.50  E-value=0.0038  Score=61.85  Aligned_cols=28  Identities=29%  Similarity=0.405  Sum_probs=23.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...++++|||+|.||||+|..+-+-+.
T Consensus       492 ~pGe~vALVGPSGsGKSTiasLL~rfY~  519 (716)
T KOG0058|consen  492 RPGEVVALVGPSGSGKSTIASLLLRFYD  519 (716)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4567999999999999999998866544

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=96.50  E-value=0.0099  Score=51.31  Aligned_cols=29  Identities=28%  Similarity=0.465  Sum_probs=24.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+.+|+|++|+|||||.+.+....+.
T Consensus        32 ~~Gei~~iiGgSGsGKStlLr~I~Gll~P   60 (263)
T COG1127          32 PRGEILAILGGSGSGKSTLLRLILGLLRP   60 (263)
T ss_pred             cCCcEEEEECCCCcCHHHHHHHHhccCCC
Confidence            35679999999999999999999776653

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.49  E-value=0.0039  Score=58.17  Aligned_cols=27  Identities=33%  Similarity=0.519  Sum_probs=23.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...|+|+||+|+|||||.+.+...+..
T Consensus       613 dSRiaIVGPNGVGKSTlLkLL~Gkl~P  639 (807)
T KOG0066|consen  613 DSRIAIVGPNGVGKSTLLKLLIGKLDP  639 (807)
T ss_pred             cceeEEECCCCccHHHHHHHHhcCCCC
Confidence            468999999999999999999877654

>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=96.49  E-value=0.0025  Score=48.25  Aligned_cols=23  Identities=35%  Similarity=0.283  Sum_probs=20.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      ....++|.|++|+|||||++.+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            45789999999999999999976

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

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.49  E-value=0.0027  Score=52.91  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=23.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|.++|++|+||||+|+.+.....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999999874

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.49  E-value=0.016  Score=49.61  Aligned_cols=29  Identities=28%  Similarity=0.438  Sum_probs=25.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+.+|.|+|++|+||||||+.+......
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~   50 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHE   50 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45679999999999999999999987753

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.49  E-value=0.013  Score=49.78  Aligned_cols=42  Identities=26%  Similarity=0.325  Sum_probs=28.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCc--------cEEEEEEecCC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF--------DKVGIATVSQD  184 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~  184 (375)
                      ..++.|.|++|+||||++..+.........|        ..+.|+.....
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            4689999999999999999988877643333        24566655544

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.48  E-value=0.0079  Score=60.67  Aligned_cols=29  Identities=34%  Similarity=0.389  Sum_probs=25.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       365 ~~Ge~iaIvG~SGsGKSTLl~lL~gl~~p  393 (592)
T PRK10790        365 PSRGFVALVGHTGSGKSTLASLLMGYYPL  393 (592)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccCC
Confidence            45789999999999999999999776653

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=96.48  E-value=0.0066  Score=58.83  Aligned_cols=27  Identities=30%  Similarity=0.461  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+.++|+|++|+|||||+..+..-..
T Consensus       346 ~g~~talvG~SGaGKSTLl~lL~G~~~  372 (559)
T COG4988         346 AGQLTALVGASGAGKSTLLNLLLGFLA  372 (559)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcCC
Confidence            467999999999999999999976655

>PRK04040 adenylate kinase; Provisional

Probab=96.47  E-value=0.0025  Score=54.03  Aligned_cols=26  Identities=38%  Similarity=0.517  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|+|+|++|+||||+++.+.....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            35899999999999999999998874

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=96.46  E-value=0.023  Score=54.27  Aligned_cols=95  Identities=14%  Similarity=0.089  Sum_probs=60.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-----------CCccEEEEEEecCCCChhHHHHHHHHHhC-CC-------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-----------NIFDKVGIATVSQDPSIINVQSELVKSLG-WA-------  201 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-----------~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-~~-------  201 (375)
                      ...+.++|.|.+|+|||||+.++.+.....           +.-..++++.+.+.....+.+.+.+..-+ ..       
T Consensus       139 g~GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~a  218 (466)
T TIGR01040       139 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLN  218 (466)
T ss_pred             ccCCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEE
Confidence            357899999999999999999988776510           11114566677776666666666555544 11       


Q ss_pred             CCCCCH-H-----HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          202 LTEKDE-E-----DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       202 ~~~~~~-~-----~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      ..+.+. .     .....+.+++..-+++.+||++||+..
T Consensus       219 tsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       219 LANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence            111111 1     223345565544567999999999853

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>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=96.46  E-value=0.0024  Score=50.94  Aligned_cols=28  Identities=32%  Similarity=0.471  Sum_probs=24.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||.+.+......
T Consensus        10 ~g~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen   10 PGEIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             CCCEEEEEccCCCccccceeeecccccc
Confidence            4579999999999999999999877653

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 ....

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.45  E-value=0.015  Score=48.89  Aligned_cols=120  Identities=17%  Similarity=0.064  Sum_probs=61.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEE--EEEecCCCChhHHHHHHH--HH--hCCC--CCCCCHHH----
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVG--IATVSQDPSIINVQSELV--KS--LGWA--LTEKDEED----  209 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~--wv~~~~~~~~~~~~~~i~--~~--l~~~--~~~~~~~~----  209 (375)
                      ....|.|+|.+|-||||.|-.+.-+....+ +...+  |+.-.........++.+-  ..  .+..  +......+    
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G-~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHG-KKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCC-CeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            346899999999999999988877665432 22211  222121223333333320  00  0111  11111111    


Q ss_pred             HHHHHHHHhhhcCC-CcEEEEEeCCCCc-----ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          210 RADRLRLMFSESKS-RKILVILDDVWKE-----LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       210 ~~~~l~~~~~~l~~-kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      ....+....+.+.. +--|||||++-..     -..+++...+.....+..||+|-|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            11222222335544 4459999998532     22333434444455667999999974

>PLN03211 ABC transporter G-25; Provisional

Probab=96.45  E-value=0.047  Score=55.58  Aligned_cols=27  Identities=22%  Similarity=0.484  Sum_probs=24.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||.+.+....+
T Consensus        93 ~Ge~~aI~GpnGaGKSTLL~iLaG~~~  119 (659)
T PLN03211         93 PGEILAVLGPSGSGKSTLLNALAGRIQ  119 (659)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999999999988754

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

Probab=96.44  E-value=0.0051  Score=51.89  Aligned_cols=36  Identities=33%  Similarity=0.400  Sum_probs=29.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      .+++.|+||+|+|||||++.+.....  ..|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~--~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFP--DKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHST--TTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcc--cccccceeec
Confidence            47899999999999999999999876  4475555444

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 ....

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.44  E-value=0.017  Score=54.90  Aligned_cols=91  Identities=15%  Similarity=0.214  Sum_probs=51.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC-------CCCCCH-H----
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA-------LTEKDE-E----  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~-~----  208 (375)
                      .....++|+|++|+|||||++.+....+.   ...++.....+.....++....+..-+..       ..+.+. .    
T Consensus       138 ~~Gq~i~I~G~sG~GKTtLl~~I~~~~~~---~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a  214 (418)
T TIGR03498       138 CRGQRLGIFAGSGVGKSTLLSMLARNTDA---DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQA  214 (418)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhCCCCC---CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHH
Confidence            34679999999999999999988876542   22233333333334445555443332111       111111 1    


Q ss_pred             -HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 -DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 -~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       .....+.+++.. +++.+||++||+..
T Consensus       215 ~~~a~~iAEyfrd-~G~~Vll~~DslTr  241 (418)
T TIGR03498       215 AYTATAIAEYFRD-QGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHHH-cCCCEEEeccchhH
Confidence             122334454332 57999999999854

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=96.42  E-value=0.018  Score=54.72  Aligned_cols=90  Identities=17%  Similarity=0.316  Sum_probs=51.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~---  208 (375)
                      .....++|+|++|+|||||++.+.+....    +..+...+.... ....+...+...-..       ...+.+. .   
T Consensus       135 ~~Gq~~~I~G~sG~GKTtLl~~I~~~~~~----~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~  210 (411)
T TIGR03496       135 GRGQRMGIFAGSGVGKSTLLGMMARYTEA----DVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLR  210 (411)
T ss_pred             ecCcEEEEECCCCCCHHHHHHHHhcCCCC----CEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHH
Confidence            35678999999999999999988876542    233344444433 344444444332111       1111211 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++.. +++.+||++||+..
T Consensus       211 a~~~a~tiAEyfr~-~G~~Vll~~Dsltr  238 (411)
T TIGR03496       211 AAFYATAIAEYFRD-QGKDVLLLMDSLTR  238 (411)
T ss_pred             HHHHHHHHHHHHHH-CCCCEEEEEeChHH
Confidence              122334454433 58999999999854

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.41  E-value=0.0026  Score=51.32  Aligned_cols=44  Identities=27%  Similarity=0.416  Sum_probs=34.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA  201 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  201 (375)
                      +|.|.|++|+||||+|+.+.+...-.    +   +      +.-.++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~----~---v------saG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK----L---V------SAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc----e---e------eccHHHHHHHHHcCCC
Confidence            68999999999999999999987632    1   1      2236788888887754

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=96.40  E-value=0.02  Score=55.24  Aligned_cols=94  Identities=18%  Similarity=0.195  Sum_probs=56.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC--------------CCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGWA--------------LTEK  205 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~--------------~~~~  205 (375)
                      ...+.++|.|.+|+|||||+.++....... +-+.++++-+.+.. ...+++..+...-...              ..+.
T Consensus       159 gkGQR~gIfgg~GvGKs~L~~~~~~~~~~~-~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~  237 (494)
T CHL00060        159 RRGGKIGLFGGAGVGKTVLIMELINNIAKA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  237 (494)
T ss_pred             ccCCEEeeecCCCCChhHHHHHHHHHHHHh-cCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCC
Confidence            357899999999999999999888774321 12567777776554 4556666665511000              0111


Q ss_pred             CH-H-----HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          206 DE-E-----DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       206 ~~-~-----~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      +. .     .....+.+++..-.++.+||++||+..
T Consensus       238 p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR  273 (494)
T CHL00060        238 PPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR  273 (494)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence            11 1     223345553333334599999999854

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.40  E-value=0.0027  Score=53.76  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++.|+||+|+|||||++.+.....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~   27 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQ   27 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCC
Confidence            4789999999999999999977654

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=96.39  E-value=0.011  Score=56.32  Aligned_cols=90  Identities=17%  Similarity=0.322  Sum_probs=50.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC-------CCCCCH-----
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA-------LTEKDE-----  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~~~-----  207 (375)
                      ...+.++|+|++|+|||||++.+.+....    +..+...+.. ..+...+....+..-+..       ..+.+.     
T Consensus       153 ~~GQ~igI~G~sGaGKSTLl~~I~g~~~~----dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~  228 (434)
T PRK07196        153 GKGQRVGLMAGSGVGKSVLLGMITRYTQA----DVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIK  228 (434)
T ss_pred             ecceEEEEECCCCCCccHHHHHHhcccCC----CeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHH
Confidence            45789999999999999999998875542    2222222322 223333333333322211       111111     


Q ss_pred             -HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 -EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 -~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       .+....+.+++. -+++.+||++||+..
T Consensus       229 a~e~a~~iAEyfr-~~g~~Vll~~Dsltr  256 (434)
T PRK07196        229 ATELCHAIATYYR-DKGHDVLLLVDSLTR  256 (434)
T ss_pred             HHHHHHHHHHHhh-hccCCEEEeecchhH
Confidence             122334444333 357999999999864

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.39  E-value=0.0032  Score=52.70  Aligned_cols=26  Identities=23%  Similarity=0.424  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|.+.|++|+||||+|+.+.....
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            36899999999999999999987754

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

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.38  E-value=0.0061  Score=56.46  Aligned_cols=48  Identities=17%  Similarity=0.182  Sum_probs=39.9

Q ss_pred             CCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          121 FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+|.++.+..|+-.+-++...-+.|.|++|+|||||++.+..-..
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~   50 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLP   50 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhc
Confidence            456789999998887777676667788999999999999999987653

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.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.38  E-value=0.018  Score=49.93  Aligned_cols=73  Identities=30%  Similarity=0.366  Sum_probs=45.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      +.++-+.++||+|+|||-||+.|+++...  .|-.++     .+    ++.+   +.+|     ..+....+.++-   +
T Consensus       187 dpprgvllygppg~gktml~kava~~t~a--~firvv-----gs----efvq---kylg-----egprmvrdvfrl---a  244 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTTA--AFIRVV-----GS----EFVQ---KYLG-----EGPRMVRDVFRL---A  244 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccch--heeeec-----cH----HHHH---HHhc-----cCcHHHHHHHHH---H
Confidence            46788999999999999999999997763  243221     10    1111   1222     122333333333   4


Q ss_pred             cCCCcEEEEEeCCCC
Q 038205          221 SKSRKILVILDDVWK  235 (375)
Q Consensus       221 l~~kr~LlVlDdv~~  235 (375)
                      -.+-+-++.+|+++.
T Consensus       245 kenapsiifideida  259 (408)
T KOG0727|consen  245 KENAPSIIFIDEIDA  259 (408)
T ss_pred             hccCCcEEEeehhhh
Confidence            456788999998764

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.38  E-value=0.012  Score=55.58  Aligned_cols=46  Identities=24%  Similarity=0.313  Sum_probs=35.1

Q ss_pred             ccchHHHHHHHHHHHhcC--------------CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          124 FETTESACNQIIEALKKD--------------STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~~--------------~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ++|.++.++.+.-.+...              .++.|.++|++|+|||++|+.+......
T Consensus        14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            567777777776554321              2468899999999999999999988763

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.36  E-value=0.022  Score=50.10  Aligned_cols=49  Identities=16%  Similarity=0.154  Sum_probs=34.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      ...++.|+|++|+|||+|+.++....-..  =..++|++...  +...+.+++
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~--~~~~~~~~~   72 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTEN--TSKSYLKQM   72 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCC--CHHHHHHHH
Confidence            46799999999999999999986543222  24567777654  344555443

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=96.36  E-value=0.033  Score=53.34  Aligned_cols=90  Identities=16%  Similarity=0.285  Sum_probs=52.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC-------CCCCCH-H---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGWA-------LTEKDE-E---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~-~---  208 (375)
                      ...+.++|+|++|+|||||++.+.+...    .+.++...+.... +...+...+...-+..       ..+.+. .   
T Consensus       166 ~~GqrigI~G~sG~GKSTLl~~I~g~~~----~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~  241 (451)
T PRK05688        166 GRGQRLGLFAGTGVGKSVLLGMMTRFTE----ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLR  241 (451)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHH
Confidence            3467899999999999999999887543    2333334444333 4444444444332211       111111 1   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++.. +++.+||++||+..
T Consensus       242 a~~~a~aiAEyfrd-~G~~VLl~~DslTR  269 (451)
T PRK05688        242 AAMYCTRIAEYFRD-KGKNVLLLMDSLTR  269 (451)
T ss_pred             HHHHHHHHHHHHHH-CCCCEEEEecchhH
Confidence              122345554432 58999999999854

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.36  E-value=0.0037  Score=52.33  Aligned_cols=28  Identities=39%  Similarity=0.604  Sum_probs=24.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+|.|.|++|+||||+|+.+......
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4569999999999999999999998764

>PRK06217 hypothetical protein; Validated

Probab=96.35  E-value=0.0028  Score=53.48  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=22.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+++.+.....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998875

>PRK14527 adenylate kinase; Provisional

Probab=96.35  E-value=0.0033  Score=53.51  Aligned_cols=28  Identities=32%  Similarity=0.376  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+.+|.|+|++|+||||+|+.+.....
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3467999999999999999999987765

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.35  E-value=0.015  Score=58.47  Aligned_cols=84  Identities=25%  Similarity=0.306  Sum_probs=54.2

Q ss_pred             cccccCCCC-CCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHH
Q 038205          112 DKEMPIPRF-FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINV  190 (375)
Q Consensus       112 ~~~~~~~~~-~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  190 (375)
                      .+.+++|.. ...++|+++.+..+...+...  +.+.++|++|+||||+++.+.+..... .|...+++.- ...+...+
T Consensus         7 ~~~~~~~~~~~~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~~~-~~~~~~~~~n-~~~~~~~~   82 (608)
T TIGR00764         7 TEEIPVPERLIDQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLPDE-ELEDILVYPN-PEDPNMPR   82 (608)
T ss_pred             ccccCcchhhHhhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcCch-hheeEEEEeC-CCCCchHH
Confidence            445555544 345678888888777777654  366699999999999999999877643 3333333322 22344455


Q ss_pred             HHHHHHHhC
Q 038205          191 QSELVKSLG  199 (375)
Q Consensus       191 ~~~i~~~l~  199 (375)
                      ++.+...++
T Consensus        83 ~~~v~~~~g   91 (608)
T TIGR00764        83 IVEVPAGEG   91 (608)
T ss_pred             HHHHHHhhc
Confidence            666655554

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

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

Probab=96.34  E-value=0.0027  Score=53.58  Aligned_cols=23  Identities=48%  Similarity=0.745  Sum_probs=21.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

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

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=96.33  E-value=0.019  Score=54.77  Aligned_cols=90  Identities=16%  Similarity=0.210  Sum_probs=52.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-CChhHHHHHHHHHhCC--------CCCCCCHH---
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-PSIINVQSELVKSLGW--------ALTEKDEE---  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~--------~~~~~~~~---  208 (375)
                      .....++|+|++|+|||||++.+.+...    .+..++..+... ..+...+.+....-..        ..+.....   
T Consensus       153 ~~GqrigI~G~sG~GKSTLL~~I~~~~~----~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~  228 (433)
T PRK07594        153 GEGQRVGIFSAPGVGKSTLLAMLCNAPD----ADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVR  228 (433)
T ss_pred             CCCCEEEEECCCCCCccHHHHHhcCCCC----CCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHH
Confidence            4578999999999999999999987654    333445444443 3444555554321000        11111111   


Q ss_pred             --HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          209 --DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       209 --~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                        .....+.+++. -+++++||++||+..
T Consensus       229 a~~~a~tiAEyfr-d~G~~VLl~~Dsltr  256 (433)
T PRK07594        229 ALFVATTIAEFFR-DNGKRVVLLADSLTR  256 (433)
T ss_pred             HHHHHHHHHHHHH-HCCCcEEEEEeCHHH
Confidence              12233445443 257999999999853

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.32  E-value=0.081  Score=48.58  Aligned_cols=49  Identities=27%  Similarity=0.289  Sum_probs=35.4

Q ss_pred             CCCccchHHHHHHHHHHHhc--------------CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          121 FSSFETTESACNQIIEALKK--------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....|-+..++.+.+...-              ....-|.++||+|.|||-||+.+..+...
T Consensus        91 f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga  153 (386)
T KOG0737|consen   91 FDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGA  153 (386)
T ss_pred             hhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCC
Confidence            34455667766666655310              13567899999999999999999998763

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.32  E-value=0.037  Score=51.18  Aligned_cols=24  Identities=42%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+.|++|+||||+++.+.+....
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~   25 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRR   25 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHh
Confidence            578999999999999999988763

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

>PRK00625 shikimate kinase; Provisional

Probab=96.32  E-value=0.0032  Score=52.56  Aligned_cols=24  Identities=38%  Similarity=0.451  Sum_probs=21.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.++|++|+||||+++.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988765

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.32  E-value=0.01  Score=55.85  Aligned_cols=86  Identities=20%  Similarity=0.176  Sum_probs=48.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCC--HHHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKD--EEDRADRLRLMFS  219 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~--~~~~~~~l~~~~~  219 (375)
                      ...++.|.|++|+|||||+.+++......  -..++|++....  ... +..-+.+++...+...  .....+.+.+   
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs--~~q-i~~Ra~rlg~~~~~l~l~~e~~le~I~~---  152 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEES--PEQ-IKLRADRLGISTENLYLLAETNLEDILA---  152 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCcC--HHH-HHHHHHHcCCCcccEEEEccCcHHHHHH---
Confidence            35799999999999999999998776643  245667665432  222 2233445554322110  0011112222   


Q ss_pred             hc-CCCcEEEEEeCCCC
Q 038205          220 ES-KSRKILVILDDVWK  235 (375)
Q Consensus       220 ~l-~~kr~LlVlDdv~~  235 (375)
                      .+ ..+.-+||+|.+..
T Consensus       153 ~i~~~~~~lVVIDSIq~  169 (372)
T cd01121         153 SIEELKPDLVIIDSIQT  169 (372)
T ss_pred             HHHhcCCcEEEEcchHH
Confidence            22 23667899999753

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.32  E-value=0.021  Score=62.80  Aligned_cols=28  Identities=18%  Similarity=0.304  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .++-|.++||+|+|||.||++++.+..+
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            4678899999999999999999998764

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.32  E-value=0.033  Score=50.97  Aligned_cols=85  Identities=22%  Similarity=0.150  Sum_probs=51.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ..+++-|+|+.|+||||||-.+.......  -..++|+.....++.     ..+..++.+.+      +.+.++....+.
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~-----~~a~~lGvdl~rllv~~P~~~E~al~~~e  124 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDP-----EYAESLGVDLDRLLVVQPDTGEQALWIAE  124 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---H-----HHHHHTT--GGGEEEEE-SSHHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchh-----hHHHhcCccccceEEecCCcHHHHHHHHH
Confidence            46799999999999999999988776533  356789887766554     34445554322      233444444444


Q ss_pred             HHhhhcCC-CcEEEEEeCCCCc
Q 038205          216 LMFSESKS-RKILVILDDVWKE  236 (375)
Q Consensus       216 ~~~~~l~~-kr~LlVlDdv~~~  236 (375)
                      .   .++. .--++|+|.|...
T Consensus       125 ~---lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  125 Q---LIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             H---HHHTTSESEEEEE-CTT-
T ss_pred             H---HhhcccccEEEEecCccc
Confidence            4   3333 3458999988653

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

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

Probab=96.31  E-value=0.0031  Score=53.04  Aligned_cols=25  Identities=56%  Similarity=0.785  Sum_probs=22.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +|+|.|.+|+||||||+.+......
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999988753

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

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

Probab=96.30  E-value=0.045  Score=49.08  Aligned_cols=91  Identities=15%  Similarity=0.113  Sum_probs=56.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH-hCCC--CCCCCHHHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS-LGWA--LTEKDEEDRADRLRLMF  218 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~-l~~~--~~~~~~~~~~~~l~~~~  218 (375)
                      ..+++=|+|+.|+||||+|-+++-.....  -..++|+...+.+++..+. ++... +..-  ....+.++....+....
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~-~l~~~~~d~l~v~~~~~~e~q~~i~~~~~  135 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAK-QLGVDLLDNLLVSQPDTGEQQLEIAEKLA  135 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHH-HHHHhhhcceeEecCCCHHHHHHHHHHHH
Confidence            46789999999999999999987665532  3378899888877766544 33333 2211  11223333333333322


Q ss_pred             hhcCCCcEEEEEeCCCC
Q 038205          219 SESKSRKILVILDDVWK  235 (375)
Q Consensus       219 ~~l~~kr~LlVlDdv~~  235 (375)
                      .....+--|+|+|.+..
T Consensus       136 ~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         136 RSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HhccCCCCEEEEecCcc
Confidence            23433566999998854

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.29  E-value=0.073  Score=52.58  Aligned_cols=48  Identities=21%  Similarity=0.180  Sum_probs=37.7

Q ss_pred             CCCccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          121 FSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...++|+...+.++.+.+..  ....-|.|+|+.|+|||++|+.+.+...
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            35577888888777777643  3456789999999999999999988654

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.29  E-value=0.034  Score=51.32  Aligned_cols=27  Identities=41%  Similarity=0.337  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      -+-|.++||+|.|||-||+.|+.....
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATEc~t  271 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATECGT  271 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHhhcC
Confidence            356889999999999999999998774

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

Probab=96.29  E-value=0.003  Score=51.32  Aligned_cols=23  Identities=30%  Similarity=0.622  Sum_probs=20.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ++.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998864

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

>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=96.28  E-value=0.0032  Score=50.79  Aligned_cols=24  Identities=33%  Similarity=0.702  Sum_probs=21.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|.|.|++|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998764

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.27  E-value=0.0031  Score=50.50  Aligned_cols=24  Identities=38%  Similarity=0.548  Sum_probs=21.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|+|+|++|+|||||++.+.....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCC
Confidence            378999999999999999998654

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.26  E-value=0.051  Score=50.16  Aligned_cols=40  Identities=28%  Similarity=0.565  Sum_probs=31.0

Q ss_pred             HHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          131 CNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       131 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...|++.+.  .+...+|+|.|++|+|||||+..+....+..
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            344555553  3457799999999999999999998887754

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=96.26  E-value=0.0089  Score=59.75  Aligned_cols=28  Identities=32%  Similarity=0.376  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       366 ~~G~~~aivG~sGsGKSTl~~ll~g~~~  393 (555)
T TIGR01194       366 AQGDIVFIVGENGCGKSTLAKLFCGLYI  393 (555)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4578999999999999999999976554

This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.

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

Probab=96.26  E-value=0.0052  Score=53.83  Aligned_cols=30  Identities=23%  Similarity=0.439  Sum_probs=26.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      .+.+|.++||+|+||||+.+.++...+.+.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~   47 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKK   47 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhcc
Confidence            456889999999999999999999888653

>PRK14530 adenylate kinase; Provisional

Probab=96.26  E-value=0.0038  Score=54.21  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|+|++|+||||+++.+.....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.26  E-value=0.0052  Score=56.96  Aligned_cols=50  Identities=20%  Similarity=0.166  Sum_probs=42.4

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+...+|.++.+..|+..+.++...-+.|.|+.|+||||+|+.+++-...
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~   64 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPE   64 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            35667899999999988887777777889999999999999999877653

>PTZ00185 ATPase alpha subunit; Provisional

Probab=96.25  E-value=0.05  Score=52.63  Aligned_cols=93  Identities=22%  Similarity=0.180  Sum_probs=56.1

Q ss_pred             CCcEEEEEcCCCchHHHHH-HHHHhhhhhc-----CCccEEEEEEecCCCChhHHHHHHHHHhC-CC-------CCCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLA-KFVGNQLRQN-----NIFDKVGIATVSQDPSIINVQSELVKSLG-WA-------LTEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~-----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-~~-------~~~~~~  207 (375)
                      ..+.++|.|..|+|||+|| ..+.+.....     ..-..++++-+.+..+...-+.+.+..-+ ..       ....+.
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~  267 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPA  267 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCH
Confidence            5678999999999999996 6666665321     23346778888776644433444444433 11       011111


Q ss_pred             -H-----HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 -E-----DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 -~-----~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                       .     .....+.+++. -+++.+|+|+||+..
T Consensus       268 ~~r~~Apy~a~tiAEYFr-d~GkdVLiv~DDLTr  300 (574)
T PTZ00185        268 GLQYLAPYSGVTMGEYFM-NRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHH-HcCCCEEEEEcCchH
Confidence             1     12334455443 257999999999864

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.25  E-value=0.0082  Score=56.17  Aligned_cols=121  Identities=14%  Similarity=0.093  Sum_probs=62.6

Q ss_pred             HHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc-EEEEEEecCCCChhHHHH--HHHHHhCCCCCCCCHHHH
Q 038205          134 IIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD-KVGIATVSQDPSIINVQS--ELVKSLGWALTEKDEEDR  210 (375)
Q Consensus       134 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~--~i~~~l~~~~~~~~~~~~  210 (375)
                      +.+.+.. ....|.|+|+.|+||||+++.+.+.......-. .++.+.-+-.+.......  ..+.+-..   .......
T Consensus       126 ~~~~~~~-~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~~~~~~~~v~Q~~v---~~~~~~~  201 (358)
T TIGR02524       126 IIDAIAP-QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDEIETISASVCQSEI---PRHLNNF  201 (358)
T ss_pred             HHHHHhc-cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccccccccceeeeeec---cccccCH
Confidence            4444443 457999999999999999999987764221111 222221111111111100  00001000   0011234


Q ss_pred             HHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhH
Q 038205          211 ADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       211 ~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                      ...++.   .++..+-.+++.++.+.+.......   ....|..++-|-+..+.
T Consensus       202 ~~~l~~---aLR~~Pd~i~vGEiRd~et~~~al~---aa~tGh~v~tTlHa~~~  249 (358)
T TIGR02524       202 AAGVRN---ALRRKPHAILVGEARDAETISAALE---AALTGHPVYTTLHSSGV  249 (358)
T ss_pred             HHHHHH---HhccCCCEEeeeeeCCHHHHHHHHH---HHHcCCcEEEeeccCCH
Confidence            455555   7778889999999887766543211   22345556666665444

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.23  E-value=0.0044  Score=51.91  Aligned_cols=27  Identities=19%  Similarity=0.293  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..++.|+|++|+||||+++.+......
T Consensus         3 ge~i~l~G~sGsGKSTl~~~la~~l~~   29 (176)
T PRK09825          3 GESYILMGVSGSGKSLIGSKIAALFSA   29 (176)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            358999999999999999999987653

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.23  E-value=0.0041  Score=52.84  Aligned_cols=28  Identities=32%  Similarity=0.539  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        16 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   43 (190)
T TIGR01166        16 ERGEVLALLGANGAGKSTLLLHLNGLLR   43 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3467999999999999999999987654

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.23  E-value=0.017  Score=51.02  Aligned_cols=24  Identities=25%  Similarity=0.409  Sum_probs=20.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..|+|++|+|||+|+..++-...
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999977654

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK09099 type III secretion system ATPase; Provisional

Probab=96.23  E-value=0.016  Score=55.38  Aligned_cols=91  Identities=15%  Similarity=0.246  Sum_probs=52.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC-------CCCCCH------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA-------LTEKDE------  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~------  207 (375)
                      .....++|.|++|+|||||++.+.......   ..+++....+......+.+.+...-+..       ..+.+.      
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a  237 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKA  237 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHH
Confidence            457899999999999999999998765432   2333333333444555555554332111       111111      


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      ......+.+++. -+++.+||++||+..
T Consensus       238 ~~~a~tiAEyfr-d~G~~VLl~~DslTr  264 (441)
T PRK09099        238 AYVATAIAEYFR-DRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHH-HcCCCEEEeccchhH
Confidence            112233444333 257999999999854

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=96.23  E-value=0.031  Score=53.90  Aligned_cols=94  Identities=16%  Similarity=0.123  Sum_probs=58.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc---CCccEEEEEEecCC-CChhHHHHHHHHHhCCC-------CCCCCH--
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN---NIFDKVGIATVSQD-PSIINVQSELVKSLGWA-------LTEKDE--  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~--  207 (375)
                      ...+.++|.|..|+|||||+.++.+.....   ..+ .++++-+.+. ....+++..+...=...       ..+.+.  
T Consensus       141 g~GQR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~-v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~  219 (460)
T PRK04196        141 VRGQKLPIFSGSGLPHNELAAQIARQAKVLGEEENF-AVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIE  219 (460)
T ss_pred             cCCCEEEeeCCCCCCccHHHHHHHHhhhhccCCCce-EEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHH
Confidence            357899999999999999999998876532   122 4555556544 45566666665542111       111111  


Q ss_pred             ----HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 ----EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ----~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                          ......+.+++..-+++++||++||+..
T Consensus       220 R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR  251 (460)
T PRK04196        220 RILTPRMALTAAEYLAFEKGMHVLVILTDMTN  251 (460)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcEEEEEcChHH
Confidence                1223445564433466999999999854

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.23  E-value=0.0076  Score=55.38  Aligned_cols=112  Identities=16%  Similarity=0.120  Sum_probs=59.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL-GWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l-~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      ....+.|+|+.|+|||||++.+........   .++.+.-.....+..  .....-. .........-...+.+..   .
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~~---~iv~ied~~El~~~~--~~~~~l~~~~~~~~~~~~~~~~~l~~---~  214 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKDE---RIITIEDTREIFLPH--PNYVHLFYSKGGQGLAKVTPKDLLQS---C  214 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCccc---cEEEEcCccccCCCC--CCEEEEEecCCCCCcCccCHHHHHHH---H
Confidence            457999999999999999999887764321   122221111111110  0000000 000001111233445555   7


Q ss_pred             cCCCcEEEEEeCCCCcccccccCCCCCCCCCCcE-EEEEeCChhHH
Q 038205          221 SKSRKILVILDDVWKELDLETIGIPVGDRDNCCK-ILLTTRLQQVC  265 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~-IivTTr~~~v~  265 (375)
                      ++..+-.+++|++.+.+.+..+ ....   .|.. ++.|++..+..
T Consensus       215 Lr~~pd~ii~gE~r~~e~~~~l-~a~~---~g~~~~i~T~Ha~~~~  256 (308)
T TIGR02788       215 LRMRPDRIILGELRGDEAFDFI-RAVN---TGHPGSITTLHAGSPE  256 (308)
T ss_pred             hcCCCCeEEEeccCCHHHHHHH-HHHh---cCCCeEEEEEeCCCHH
Confidence            7778889999999886655433 2222   2333 57788876543

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=96.22  E-value=0.031  Score=53.30  Aligned_cols=122  Identities=14%  Similarity=0.219  Sum_probs=65.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC-------CCCCCH------
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA-------LTEKDE------  207 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~------  207 (375)
                      ...+.++|+|++|+|||||++.++...+..   ..++.....+.....+.+.+.+..-+..       ..+.+.      
T Consensus       154 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~~~~---~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra  230 (432)
T PRK06793        154 GIGQKIGIFAGSGVGKSTLLGMIAKNAKAD---INVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRA  230 (432)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccCCCC---eEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHH
Confidence            456799999999999999999998876531   1233222223355556666555442211       111111      


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCCc-ccccccCCC---CCCCCCCcEEEEEeCChhHHhhh
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWKE-LDLETIGIP---VGDRDNCCKILLTTRLQQVCYRM  268 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~~-~~~~~l~~~---l~~~~~gs~IivTTr~~~v~~~~  268 (375)
                      ......+.+++. -++++.||++||+... ....++...   .+.  .|-...+.|....++...
T Consensus       231 ~~~a~~iAEyfr-~~G~~VLlilDslTr~a~A~reisl~~~e~p~--~G~~~~~~s~l~~L~ERa  292 (432)
T PRK06793        231 AKLATSIAEYFR-DQGNNVLLMMDSVTRFADARRSVDIAVKELPI--GGKTLLMESYMKKLLERS  292 (432)
T ss_pred             HHHHHHHHHHHH-HcCCcEEEEecchHHHHHHHHHHHHHhcCCCC--CCeeeeeeccchhHHHHh
Confidence            112233444333 2579999999998654 222332211   221  244555555555555443

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=96.22  E-value=0.013  Score=58.39  Aligned_cols=28  Identities=25%  Similarity=0.432  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       342 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  369 (544)
T TIGR01842       342 QAGEALAIIGPSGSGKSTLARLIVGIWP  369 (544)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4577999999999999999999987654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.22  E-value=0.0031  Score=52.10  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=20.3

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |.|+|++|+||||+|+.+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~   23 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999998763

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.

>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=96.22  E-value=0.0073  Score=49.42  Aligned_cols=37  Identities=30%  Similarity=0.374  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          129 SACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       129 ~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.++.|.+++..   +++.++|++|+|||||+..+.....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~~   60 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEAK   60 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS-
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhcc
Confidence            445666666654   7999999999999999999988653

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.

>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=96.21  E-value=0.0041  Score=54.03  Aligned_cols=28  Identities=32%  Similarity=0.546  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        28 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~~   55 (218)
T cd03255          28 EKGEFVAIVGPSGSGKSTLLNILGGLDR   55 (218)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhCCcC
Confidence            3567999999999999999999987654

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.21  E-value=0.0069  Score=55.98  Aligned_cols=50  Identities=22%  Similarity=0.210  Sum_probs=39.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      |-.+..++|.++.++.+.-.+...+..-+.+.|++|+||||+|+.+..-.
T Consensus         4 ~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          4 PFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            34456778999998887765544445678999999999999999997765

>PRK13949 shikimate kinase; Provisional

Probab=96.21  E-value=0.0043  Score=51.63  Aligned_cols=25  Identities=40%  Similarity=0.469  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..|.|+|++|+||||+++.+.....
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999998875

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.20  E-value=0.0047  Score=51.19  Aligned_cols=25  Identities=36%  Similarity=0.426  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+.|.||+|+|||||++.+..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4688999999999999999999877

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.19  E-value=0.0044  Score=52.43  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=23.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+.+|.|+||+|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998764

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

Probab=96.19  E-value=0.0081  Score=52.41  Aligned_cols=52  Identities=25%  Similarity=0.217  Sum_probs=28.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh-----cCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ-----NNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~-----~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      +..|.||+|.||||++..+......     ...-...+-++...+..+..++..+.+
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            6899999999999877776666511     122333444444444444445544444

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

Probab=96.19  E-value=0.0043  Score=53.61  Aligned_cols=28  Identities=29%  Similarity=0.450  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        25 ~~G~~~~l~G~nGsGKSTLl~~l~G~~~   52 (211)
T cd03225          25 KKGEFVLIVGPNGSGKSTLLRLLNGLLG   52 (211)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3567999999999999999999987654

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.

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

Probab=96.19  E-value=0.0043  Score=53.86  Aligned_cols=28  Identities=32%  Similarity=0.399  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (216)
T TIGR00960        27 TKGEMVFLVGHSGAGKSTFLKLILGIEK   54 (216)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999987654

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.18  E-value=0.01  Score=52.15  Aligned_cols=28  Identities=32%  Similarity=0.501  Sum_probs=23.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++++|++|.||||+.+++-....
T Consensus        48 P~G~ivgflGaNGAGKSTtLKmLTGll~   75 (325)
T COG4586          48 PKGEIVGFLGANGAGKSTTLKMLTGLLL   75 (325)
T ss_pred             CCCcEEEEEcCCCCcchhhHHHHhCccc
Confidence            5678999999999999999999865543

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.18  E-value=0.0083  Score=47.88  Aligned_cols=40  Identities=23%  Similarity=0.187  Sum_probs=32.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      +..++.+.||+|+|||||...+.......-.|...+|+.-
T Consensus        27 ~GeivtlMGPSGcGKSTLls~~~G~La~~F~~~G~~~l~~   66 (213)
T COG4136          27 KGEIVTLMGPSGCGKSTLLSWMIGALAGQFSCTGELWLNE   66 (213)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhhcccCcceeeEEEECC
Confidence            4679999999999999999999988885544445677753

>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=96.17  E-value=0.0079  Score=49.91  Aligned_cols=24  Identities=46%  Similarity=0.560  Sum_probs=20.8

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      |.|.|++|+|||||++.+....+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            689999999999999999988854

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.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.17  E-value=0.0056  Score=41.24  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .+..|.|++|+|||||..++.--
T Consensus        24 ~~tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999876543

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.17  E-value=0.0049  Score=50.16  Aligned_cols=28  Identities=29%  Similarity=0.555  Sum_probs=24.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....++|.||+|+|||||.+.+++-...
T Consensus        28 ~Ge~iaitGPSG~GKStllk~va~Lisp   55 (223)
T COG4619          28 AGEFIAITGPSGCGKSTLLKIVASLISP   55 (223)
T ss_pred             CCceEEEeCCCCccHHHHHHHHHhccCC
Confidence            4568999999999999999999886653

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.16  E-value=0.012  Score=55.39  Aligned_cols=42  Identities=26%  Similarity=0.367  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+.+++.+....+..+.|.|+||+|||+|.+.+.+..+.
T Consensus         7 ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    7 RRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            345566666666677889999999999999999999988875

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK05439 pantothenate kinase; Provisional

Probab=96.16  E-value=0.021  Score=52.08  Aligned_cols=28  Identities=29%  Similarity=0.452  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+-+|+|.|++|+||||+|+.+.....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3466899999999999999999888664

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=96.15  E-value=0.019  Score=57.73  Aligned_cols=29  Identities=28%  Similarity=0.352  Sum_probs=24.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +....++|+|++|+|||||++.+......
T Consensus       364 ~~Ge~i~IvG~sGsGKSTLlklL~gl~~p  392 (576)
T TIGR02204       364 RPGETVALVGPSGAGKSTLFQLLLRFYDP  392 (576)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccCC
Confidence            45779999999999999999999876653

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.15  E-value=0.041  Score=46.36  Aligned_cols=29  Identities=31%  Similarity=0.504  Sum_probs=25.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....++.|.|++|+||||+|+.+......
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~   44 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKLES   44 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45679999999999999999999987753

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

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.15  E-value=0.033  Score=48.25  Aligned_cols=24  Identities=38%  Similarity=0.477  Sum_probs=21.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|+|++|+||||+++.+.....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999987665

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.13  E-value=0.0064  Score=52.44  Aligned_cols=32  Identities=28%  Similarity=0.361  Sum_probs=27.3

Q ss_pred             HHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          137 ALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       137 ~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+...++++|+++|+.|+|||||...+.+...
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34556789999999999999999999988754

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.12  E-value=0.005  Score=53.05  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=22.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..+.|.|+|++|+|||||++.+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5678999999999999999998754

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.11  E-value=0.0049  Score=56.59  Aligned_cols=29  Identities=28%  Similarity=0.451  Sum_probs=24.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+...++++||+|+|||||.+.++.-...
T Consensus        27 ~~Gef~vllGPSGcGKSTlLr~IAGLe~~   55 (338)
T COG3839          27 EDGEFVVLLGPSGCGKSTLLRMIAGLEEP   55 (338)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            35679999999999999999999876653

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

Probab=96.10  E-value=0.0051  Score=53.13  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=23.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGIIL   51 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999999999987654

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.

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

Probab=96.10  E-value=0.0051  Score=53.32  Aligned_cols=28  Identities=25%  Similarity=0.356  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++|+|++|+|||||++.++....
T Consensus        11 ~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~   38 (213)
T PRK15177         11 GYHEHIGILAAPGSGKTTLTRLLCGLDA   38 (213)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            3467999999999999999999987654

>PRK04328 hypothetical protein; Provisional

Probab=96.09  E-value=0.031  Score=49.69  Aligned_cols=40  Identities=18%  Similarity=0.051  Sum_probs=29.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ  183 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  183 (375)
                      ...++.|.|++|+|||+|+.++....-..  -...+|++...
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee   61 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEE   61 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeC
Confidence            46799999999999999999976654322  23456776554

>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=96.09  E-value=0.0049  Score=48.07  Aligned_cols=23  Identities=57%  Similarity=0.697  Sum_probs=18.2

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |.|.|.+|+||||+|+.++....
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~   24 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLG   24 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT
T ss_pred             EeeECCCccHHHHHHHHHHHHcC
Confidence            67999999999999999998876

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.09  E-value=0.0052  Score=48.81  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=22.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+-|.|.|.+|+|||||+..+.....
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~   32 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTG   32 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhC
Confidence            35688999999999999999996554

>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=96.09  E-value=0.005  Score=47.65  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=20.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .|.|+|..|+|||||.+.+.+....
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCc
Confidence            3789999999999999999876543

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.09  E-value=0.0044  Score=57.21  Aligned_cols=27  Identities=33%  Similarity=0.489  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...++++.||+|+||||+.+.++.-..
T Consensus        30 ~Gef~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          30 KGEFVTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            457999999999999999999976554

>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=96.09  E-value=0.0051  Score=54.15  Aligned_cols=28  Identities=29%  Similarity=0.523  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (235)
T cd03261          24 RRGEILAIIGPSGSGKSTLLRLIVGLLR   51 (235)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999987654

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.

>PRK14529 adenylate kinase; Provisional

Probab=96.08  E-value=0.015  Score=50.59  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=22.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .|.|.|++|+||||+++.+......
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~   26 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDL   26 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            3788999999999999999888763

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

Probab=96.07  E-value=0.0053  Score=52.80  Aligned_cols=28  Identities=36%  Similarity=0.617  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   51 (205)
T cd03226          24 YAGEIIALTGKNGAGKTTLAKILAGLIK   51 (205)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3567999999999999999999987654

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.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=96.07  E-value=0.26  Score=44.65  Aligned_cols=140  Identities=14%  Similarity=0.134  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhc-------------------CCccEEEEEEecCCCCh
Q 038205          128 ESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQN-------------------NIFDKVGIATVSQDPSI  187 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------------~~f~~~~wv~~~~~~~~  187 (375)
                      ...+..+...+..+. .+...++|  |.||+++|..+....--.                   +.++.+.|+.-..    
T Consensus         8 ~~~~~~L~~~~~~~rl~hAyLf~G--~~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~----   81 (290)
T PRK07276          8 PKVFQRFQTILEQDRLNHAYLFSG--DFASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQG----   81 (290)
T ss_pred             HHHHHHHHHHHHcCCcceeeeeeC--CccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCC----
Confidence            344556666666665 45678888  479999998876654211                   1112222321100    


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHh-hhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC-hh
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMF-SESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL-QQ  263 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~-~~  263 (375)
                                     .....++..+....+. ....+++-++|+|+++..  .....+...+..-.+++.+|++|.+ ..
T Consensus        82 ---------------~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~  146 (290)
T PRK07276         82 ---------------QVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENK  146 (290)
T ss_pred             ---------------CcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhh
Confidence                           0111233333222211 133456679999998764  3444444444333344666766655 44


Q ss_pred             HHhhhCCC-CcccCCCCChHHHHHHHH
Q 038205          264 VCYRMGCD-PRIKLDALDQAEGLDLLR  289 (375)
Q Consensus       264 v~~~~~~~-~~~~l~~L~~~e~~~Lf~  289 (375)
                      +.+...+. ..+++.+ +.++..+.+.
T Consensus       147 lLpTI~SRcq~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        147 VLPTIKSRTQIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             CchHHHHcceeeeCCC-cHHHHHHHHH
Confidence            54443332 5667765 6666666664

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.07  E-value=0.0054  Score=53.14  Aligned_cols=28  Identities=36%  Similarity=0.451  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        26 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~~   53 (214)
T TIGR02673        26 RKGEFLFLTGPSGAGKTTLLKLLYGALT   53 (214)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3567999999999999999999987653

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.06  E-value=0.031  Score=46.39  Aligned_cols=38  Identities=16%  Similarity=0.140  Sum_probs=26.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      ++.|.|++|+|||++|.++....     ...++++.-.+.++.
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~   38 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD   38 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH
Confidence            36799999999999999987651     234555555555443

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>cd03286 ABC_MSH6_euk MutS6 homolog in eukaryotes

Probab=96.06  E-value=0.0036  Score=54.25  Aligned_cols=25  Identities=32%  Similarity=0.307  Sum_probs=21.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..+++.|.|++|.||||+.+.+.-.
T Consensus        29 ~~~~~~itG~n~~gKs~~l~~i~~~   53 (218)
T cd03286          29 SPRILVLTGPNMGGKSTLLRTVCLA   53 (218)
T ss_pred             CCcEEEEECCCCCchHHHHHHHHHH
Confidence            3578999999999999999988654

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 sliding c

>PHA02774 E1; Provisional

Probab=96.06  E-value=0.016  Score=56.72  Aligned_cols=49  Identities=14%  Similarity=0.091  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhcC-CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          129 SACNQIIEALKKD-STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       129 ~~~~~l~~~l~~~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      ..+..|..++... ....+.|+||+|+|||.+|..+.+-..    -..+.|++.
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~  468 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNS  468 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEEC
Confidence            4455566666442 245899999999999999999998764    223455553

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.06  E-value=0.0061  Score=50.90  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|.|+|++|+||||+++.+.....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            35799999999999999999998764

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

Probab=96.06  E-value=0.0055  Score=53.35  Aligned_cols=28  Identities=39%  Similarity=0.585  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (220)
T cd03263          26 YKGEIFGLLGHNGAGKTTTLKMLTGELR   53 (220)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3467999999999999999999987654

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	375
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		9e-12
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		2e-11
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		8e-10
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		4e-09

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 67.8 bits (164), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 72/250 (28%), Positives = 118/250 (47%), Gaps = 32/250 (12%)
Query: 117 IPRFFSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD 174
           +P+    F T +   N I + L K       V +HG+ G GK+ LA      +R +++ +
Sbjct: 119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLA---AEAVRDHSLLE 175
Query: 175 KV---GIATVS---QDPS--IINVQSELVK-----SLGWALTEKDEEDRADRLRLMFSES 221
                G+  VS   QD S  ++ +Q+   +     S    L    EE + DRLR++    
Sbjct: 176 GCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAK-DRLRILMLRK 234
Query: 222 KSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVC-YRMGCDPRIKLDA-L 279
             R +L ILDDVW    L+         D+ C+ILLTTR + V    MG    + +++ L
Sbjct: 235 HPRSLL-ILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVESSL 286
Query: 280 DQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALD 339
            + +GL++L     +  AD  + + +  +  ECKG PL +  +G+ LR    + W   L 
Sbjct: 287 GKEKGLEILSLFVNMKKAD--LPEQAHSIIKECKGSPLVVSLIGALLR-DFPNRWEYYLK 343
Query: 340 KLQNAKLDKI 349
           +LQN +  +I
Sbjct: 344 QLQNKQFKRI 353

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 61.2 bits (147), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 63/222 (28%), Positives = 105/222 (47%), Gaps = 36/222 (16%)
Query: 146 VGLHGLGGVGKTTLAKFVGNQLRQNNIFDKV---GIATVS---QDPSIINVQSELVKSLG 199
           V ++G+ G GK+ LA      +R +++ +     G+  VS   QD S +     L+K   
Sbjct: 150 VTIYGMAGCGKSVLA---AEAVRDHSLLEGCFSGGVHWVSIGKQDKSGL-----LMKLQN 201
Query: 200 WALTEKDEEDRADRLRLMFSESKSR----------KILVILDDVWKELDLETIGIPVGDR 249
             +    EE  + RL L   E+K R          + L+ILDDVW    L+         
Sbjct: 202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF------- 254
Query: 250 DNCCKILLTTRLQQVC-YRMGCDPRIKLDA-LDQAEGLDLLRKHAGIDVADKTMTDVSKR 307
           DN C+ILLTTR + V    MG    + +++ L + +GL++L     +++  + +   +  
Sbjct: 255 DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILS--LFVNMKKEDLPAEAHS 312
Query: 308 VADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKI 349
           +  ECKG PL +  +G+ LR    + W   L +LQN +  +I
Sbjct: 313 IIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFKRI 353

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 58.9 bits (141), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 62/222 (27%), Positives = 104/222 (46%), Gaps = 36/222 (16%)
Query: 146 VGLHGLGGVGKTTLAKFVGNQLRQNNIFDKV---GIATVS---QDPSIINVQSELVKSLG 199
           V ++G+ G GK+ LA      +R +++ +     G+  VS   QD S +     L+K   
Sbjct: 157 VTIYGMAGCGKSVLA---AEAVRDHSLLEGCFSGGVHWVSIGKQDKSGL-----LMKLQN 208
Query: 200 WALTEKDEEDRADRLRLMFSESKSR----------KILVILDDVWKELDLETIGIPVGDR 249
             +    EE  + RL L   E+K R          + L+ILDDVW    L+         
Sbjct: 209 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF------- 261
Query: 250 DNCCKILLTTRLQQVC-YRMGCDPRIKLDA-LDQAEGLDLLRKHAGIDVADKTMTDVSKR 307
           DN C+ILLTT  + V    MG    + +++ L + +GL++L     +++  + +   +  
Sbjct: 262 DNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILS--LFVNMKKEDLPAEAHS 319
Query: 308 VADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKI 349
           +  ECKG PL +  +G+ LR    + W   L +LQN +  +I
Sbjct: 320 IIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFKRI 360

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	375
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-45
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-45
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-38
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-23

>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* Length = 549

 Score =  162 bits (412), Expect = 2e-45
 Identities = 53/358 (14%), Positives = 123/358 (34%), Gaps = 31/358 (8%)

Query: 32  IVKELEDKETNLKKEKDGINERVEQERQ-KHCAIVVEKDVEKWLADVVKEMADVRTLKAK 90
             + +    T L++  + +     Q  +          + +  LAD +++  D    +  
Sbjct: 40  HSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPD 99

Query: 91  IDKKKSCFNGWYPNWRFRYWMDKEMP---IPRFFSSFETTESACNQIIEALKKDSTK--- 144
           + +              R  +D+++    +P+  + +   E   +++I+ L +       
Sbjct: 100 LLRPVV-----IAPQFSRQMLDRKLLLGNVPKQMTCY-IREYHVDRVIKKLDEMCDLDSF 153

Query: 145 MVGLHGLGGVGKTTLAKFVGNQLRQ--NNIFDKVGIATVSQDPS------IINVQSELVK 196
            + LHG  G GK+ +A    ++  Q     +D +     S            ++   L  
Sbjct: 154 FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKS 213

Query: 197 SLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKELDLETIGIPVGDRDNCCK 254
                     E   +  L+ M   +       L + DDV +E  +         ++   +
Sbjct: 214 EDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIR------WAQELRLR 267

Query: 255 ILLTTRLQQVCYRM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECK 313
            L+TTR  ++          I++ +L+  E  D L  +       +   DV  +  +   
Sbjct: 268 CLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSS 327

Query: 314 GLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGI-DKDSRGVYGCLKFSYDYL 370
           G P  +     +   +T ++     +KL++  L  +E I     + +   L+   + L
Sbjct: 328 GNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVL 385

>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 =  165 bits (419), Expect = 3e-45
 Identities = 67/371 (18%), Positives = 131/371 (35%), Gaps = 56/371 (15%)

Query: 33  VKELEDKETNL--KKEKDGI-NERVEQERQKHCAIVV----EKDVEKWLADVVKEMADVR 85
            K+++D   ++  K+E D I   +            +    E+ V+K++ +V++   + +
Sbjct: 35  CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI--NYK 92

Query: 86  TLKAKI---DKKKSCFNGWYPNWRFRYWMDKEMPIPRFFSSFETTESACNQIIEALKK-D 141
            L + I    ++ S     Y   R R + D ++      S  +       ++ +AL +  
Sbjct: 93  FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY----LKLRQALLELR 148

Query: 142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK----VGIATVSQDPSIINVQSELVKS 197
             K V + G+ G GKT +A  V    +     D     + +   +   +++ +  +L+  
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 198 LGWALTEKDE---------EDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGD 248
           +    T + +               LR +         L++L +V               
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF------ 262

Query: 249 RDNCCKILLTTRLQQVCYRMGCDPRIKL------DALDQAEGLDLLRKHAGIDVADKTMT 302
            +  CKILLTTR +QV   +       +        L   E   LL K+      D    
Sbjct: 263 -NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD---- 317

Query: 303 DVSKRVADECKGLPLAIKAVGSALR--LRTADEW-NVALDKLQNAKLDKIEGID-KDSRG 358
               R        P  +  +  ++R  L T D W +V  DKL       +  ++  + R 
Sbjct: 318 --LPREV--LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

Query: 359 VYGCLK-FSYD 368
           ++  L  F   
Sbjct: 374 MFDRLSVFPPS 384

>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 = 48.3 bits (114), Expect = 3e-06
 Identities = 59/433 (13%), Positives = 124/433 (28%), Gaps = 123/433 (28%)

Query: 10  KLGELLVDATI--KQARYLFCFNSIVKELEDKETNLKKEKDGINER----VEQERQKHCA 63
            L       T+     + L+  +       D  +N+K     I       ++ +  ++C 
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247

Query: 64  IVVEKDVEKWLADVVKEMADV--RTLKAKIDKKKSCFNGWYPNWRFRYWMDKEMPIPRFF 121
           +V+  +V    A       ++  + L     + K   +           +D         
Sbjct: 248 LVLL-NV--QNAKAWNAF-NLSCKILL--TTRFKQVTDFLSAATTTHISLDHHSM----- 296

Query: 122 SSFETTES------------------ACN------QIIEALKKDST------KMVGLHGL 151
            +    E                             II    +D        K V    L
Sbjct: 297 -TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355

Query: 152 GGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRA 211
             + +++L      + R+   FD++ +      P   ++ + L+  + + + + D     
Sbjct: 356 TTIIESSLNVLEPAEYRKM--FDRLSVF-----PPSAHIPTILLSLIWFDVIKSDVMVVV 408

Query: 212 DRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQV---CYRM 268
           ++L         +  LV      KE    TI IP    +   K+     L +     Y +
Sbjct: 409 NKLH--------KYSLVEKQ--PKE---STISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 269 GC--------DPRIK----------LDALDQAEGLDLLRK-------------HAGI--- 294
                      P +           L  ++  E + L R              H      
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

Query: 295 ---DVADKTMTDV---SKRVADECKGLPLAIKAVGSALR-LRTADEWNVALDK----LQN 343
               + + T+  +      + D     P   + V + L  L   +E N+   K    L+ 
Sbjct: 516 ASGSILN-TLQQLKFYKPYICDND---PKYERLVNAILDFLPKIEE-NLICSKYTDLLRI 570

Query: 344 AKLDKIEGIDKDS 356
           A + + E I +++
Sbjct: 571 ALMAEDEAIFEEA 583

>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 =  143 bits (363), Expect = 2e-38
 Identities = 63/253 (24%), Positives = 104/253 (41%), Gaps = 25/253 (9%)

Query: 132 NQIIEALKKDSTKM--VGLHGLGGVGKTTLAKFVGNQLR--QNNIFDKVGIATVSQDPSI 187
           N I + L K   +   V +HG+ G GK+ LA          +      V   +V +    
Sbjct: 134 NAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKS 193

Query: 188 --INVQSELVKSLG-----WALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLE 240
             +     L   L            + E+  DRLR++    K  + L+ILDDVW    L+
Sbjct: 194 GLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILML-RKHPRSLLILDDVWDSWVLK 252

Query: 241 TIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRI--KLDALDQAEGLDLLRKHAGIDVAD 298
                    D+ C+ILLTTR + V   +     +     +L + +GL++L     +  AD
Sbjct: 253 AF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD 305

Query: 299 KTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEG-IDKDSR 357
             + + +  +  ECKG PL +  +G+ LR    + W   L +LQN +  +I      D  
Sbjct: 306 --LPEQAHSIIKECKGSPLVVSLIGALLR-DFPNRWEYYLKQLQNKQFKRIRKSSSYDYE 362

Query: 358 GVYGCLKFSYDYL 370
            +   +  S + L
Sbjct: 363 ALDEAMSISVEML 375

>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* Length = 1249

 Score =  100 bits (250), Expect = 4e-23
 Identities = 63/268 (23%), Positives = 102/268 (38%), Gaps = 33/268 (12%)

Query: 117 IPRFFSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLA-------KFVGNQL 167
           +P+    F T +   + I + L K       V ++G+ G GK+ LA         +    
Sbjct: 119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCF 178

Query: 168 RQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDE-----EDRADRLRLMFSESK 222
                +  +G    S     +     L   L    +         E+  DRLR++     
Sbjct: 179 SGGVHWVSIGKQDKSGLLMKLQ---NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKH 235

Query: 223 SRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRIK--LDALD 280
            R  L+ILDDVW    L+            C+ILLTTR + V   +     +      L 
Sbjct: 236 PR-SLLILDDVWDPWVLKAFDNQ-------CQILLTTRDKSVTDSVMGPKHVVPVESGLG 287

Query: 281 QAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDK 340
           + +GL++L     +   D  +   +  +  ECKG PL +  +G+ LR    + W   L +
Sbjct: 288 REKGLEILSLFVNMKKED--LPAEAHSIIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQ 344

Query: 341 LQNAKLDKIEGIDKDSRGVYGCLKFSYD 368
           LQN    + + I K S   Y  L  +  
Sbjct: 345 LQN---KQFKRIRKSSSYDYEALDEAMS 369

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	375
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.97
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.97
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.62
2fna_A	357	Conserved hypothetical protein; structural genomic	99.59
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.58
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.53
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.52
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.47
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.47
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.43
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.43
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.36
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.33
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.2
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.12
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.08
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.96
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.94
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.91
3pvs_A	447	Replication-associated recombination protein A; ma	98.89
3bos_A	242	Putative DNA replication factor; P-loop containing	98.89
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.86
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.84
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.82
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.82
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.81
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.77
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.75
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.75
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.71
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.71
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.7
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.68
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.68
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.65
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.64
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.64
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.6
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.57
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.57
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.56
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.55
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.49
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.46
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.46
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.44
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.42
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.38
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.35
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.33
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.33
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.31
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.29
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.29
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.27
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.26
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.22
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.21
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.17
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.16
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.16
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.02
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.0
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.98
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.96
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.95
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.88
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.81
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.8
3co5_A	143	Putative two-component system transcriptional RES	97.79
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.79
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.72
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.72
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.69
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.68
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.63
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.62
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.58
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.56
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.55
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.5
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.46
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.44
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.42
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.36
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.34
2qgz_A	308	Helicase loader, putative primosome component; str	97.33
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.33
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.32
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.25
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.23
3io5_A	333	Recombination and repair protein; storage dimer, i	97.22
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.21
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.18
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.18
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.11
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.11
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.1
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.08
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.06
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.02
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.02
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.95
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.92
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.92
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.89
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.89
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.88
3ice_A	422	Transcription termination factor RHO; transcriptio	96.88
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.88
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.87
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.86
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.85
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.85
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.84
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.82
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.77
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.77
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.77
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.76
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.76
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.75
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.75
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.73
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.72
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.72
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.72
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.71
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.69
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.69
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.67
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.66
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.64
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.62
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.62
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.62
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.61
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.6
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.6
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.6
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.59
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.59
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.58
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.58
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.56
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.56
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.55
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.55
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.54
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.53
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.52
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.52
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.52
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.51
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.5
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.49
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.48
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.48
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.46
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.46
2xxa_A	433	Signal recognition particle protein; protein trans	96.43
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.43
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.43
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.43
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.41
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.41
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.4
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.39
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.38
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.38
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.37
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.36
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.36
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.35
1via_A	175	Shikimate kinase; structural genomics, transferase	96.35
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.33
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.33
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.33
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.33
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.32
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.32
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.32
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.31
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.3
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.28
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.28
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.28
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.28
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.28
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.28
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.28
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.28
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.27
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.27
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.26
1g6h_A	257	High-affinity branched-chain amino acid transport	96.26
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.26
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.26
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.26
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.26
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.26
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.24
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	96.24
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.24
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.23
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.22
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.22
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.22
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.21
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.21
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.21
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.21
3l0o_A	427	Transcription termination factor RHO; helicase, RH	96.21
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.21
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.2
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.2
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.2
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.19
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.19
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.17
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.16
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.14
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.14
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.14
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.13
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.12
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.12
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.12
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.11
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.11
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.1
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.07
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.05
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.05
2og2_A	359	Putative signal recognition particle receptor; nuc	96.05
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.04
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.99
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.99
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.99
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.99
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.98
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.98
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.98
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.97
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.96
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.96
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.96
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.95
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.93
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.92
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.91
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.9
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.89
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.89
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.88
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.86
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.85
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.81
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.81
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.8
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.8
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.8
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.79
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.78
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.77
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.76
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.76
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	95.75
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	95.74
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.73
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.72
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	95.72
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.72
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.7
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.67
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.67
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.66
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.65
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.64
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.63
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.62
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.61
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.59
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.59
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.58
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.57
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.56
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	95.54
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.54
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.52
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.51
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.51
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.5
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.48
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.47
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.45
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.38
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.37
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.37
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.36
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.35
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.34
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.34
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.34
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.33
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.29
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.29
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.29
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.28
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.28
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.27
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.27
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.26
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.21
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.18
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.17
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.16
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.16
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.16
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.14
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.12
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.11
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.11
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.07
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.06
3end_A	307	Light-independent protochlorophyllide reductase ir	95.06
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.03
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.99
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.92
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.92
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.9
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.9
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.86
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.82
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.81
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.81
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.81
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.8
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.8
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.79
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.79
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.78
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.74
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.72
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.7
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.67
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.66
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.64
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.63
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.6
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.59
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.58
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.57
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.57
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.56
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.55
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.55
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.55
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.53
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.52
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.51
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.5
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	94.5
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.49
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.47
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.47
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.45
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.43
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.42
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.41
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.39
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.35
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.34
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.34
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.34
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.33
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.32
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.31
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.3
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.27
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.26
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.23
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.21
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.21
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.2
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.2
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.18
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.17
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.17
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.16
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.16
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.13
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.13
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.11
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.1
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.07
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.07
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.07
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.07
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.04
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.03
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.03
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.01
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.01
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.95
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.95
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.94
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.91
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.89
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	93.84
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.84
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.82
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.82
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.82
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.81
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.81
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	93.8
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	93.79
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.78
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.76
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.76
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	93.75
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.75
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.75
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.74
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.73
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.72
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.72
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.7
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.69
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.68
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.67
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.67
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	93.63
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.62
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.62
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.62
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.61
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.6
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.6
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.58
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	93.56
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.55
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.55
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.55
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.55
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	93.54
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.52
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.51
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.51
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.5
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	93.49
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.49
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.47
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	93.46
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.45
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.44
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.44
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.44
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.43
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.4
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.39
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	93.38
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.38
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.35
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	93.35
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.31
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.31
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.3
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.26
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.26
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.25
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.24
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.23
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.23
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.23
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	93.22
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.22
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.2
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	93.19
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.19
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.19
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.18
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.18
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	93.18
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.16
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.14
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.11
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.11
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	93.1
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.1
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.08
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.06
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	93.02
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.02
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.01
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	92.97

>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=100.00  E-value=1.1e-36  Score=300.18  Aligned_cols=235  Identities=18%  Similarity=0.173  Sum_probs=182.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcC---CCcEEEEEcCCCchHHHHHHHHHh--hhhhcCCccEEEEEEecCCC--ChhHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKD---STKMVGLHGLGGVGKTTLAKFVGN--QLRQNNIFDKVGIATVSQDP--SIINV  190 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~---~~~vi~I~G~~GiGKTtLa~~v~~--~~~~~~~f~~~~wv~~~~~~--~~~~~  190 (375)
                      |.....| ||+.++++|.++|..+   +.++|+|+||||+||||||+.+|+  +.+...+|+.++|+++++.+  +...+
T Consensus       125 p~~~~~~-GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  203 (549)
T 2a5y_B          125 PKQMTCY-IREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDL  203 (549)
T ss_dssp             BCCCCSC-CCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHH
T ss_pred             CCCCccC-CchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHH
Confidence            3333335 9999999999999654   578999999999999999999998  56667899999999999875  78899


Q ss_pred             HHHHHHHhCCCCC--------CCCHHHHHHHHHHHhhhcCCC-cEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCC
Q 038205          191 QSELVKSLGWALT--------EKDEEDRADRLRLMFSESKSR-KILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       191 ~~~i~~~l~~~~~--------~~~~~~~~~~l~~~~~~l~~k-r~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~  261 (375)
                      +..|+.+++....        ..+.......+.+   .+.++ ||||||||||+..++ .+.     ..+||+||||||+
T Consensus       204 ~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~---~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~  274 (549)
T 2a5y_B          204 FTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICN---ALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRD  274 (549)
T ss_dssp             HHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHH---HHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESB
T ss_pred             HHHHHHHHhcCcccccccccccccHHHHHHHHHH---HHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCC
Confidence            9999999975421        1123445666666   88896 999999999998754 111     1268999999999


Q ss_pred             hhHHhhhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHH
Q 038205          262 QQVCYRMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDK  340 (375)
Q Consensus       262 ~~v~~~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~  340 (375)
                      ..++..++ ...++++++|+.++||+||.+.++....++.+.+++++|+++|+|+||||+++|+.|+.++   |+.+ +.
T Consensus       275 ~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~---w~~~-~~  350 (549)
T 2a5y_B          275 VEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT---FEKM-AQ  350 (549)
T ss_dssp             GGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS---HHHH-HH
T ss_pred             HHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch---HHHH-HH
Confidence            99998776 3367999999999999999999885544477888999999999999999999999998774   4332 33


Q ss_pred             hhhcccCCCCCCCCCchhhhhhhhhhccCCCC
Q 038205          341 LQNAKLDKIEGIDKDSRGVYGCLKFSYDYLNG  372 (375)
Q Consensus       341 l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~  372 (375)
                      +...... .     ....+.++|.+||++||+
T Consensus       351 l~~~l~~-~-----~~~~i~~~l~~Sy~~L~~  376 (549)
T 2a5y_B          351 LNNKLES-R-----GLVGVECITPYSYKSLAM  376 (549)
T ss_dssp             HHHHHHH-H-----CSSTTCCCSSSSSSSHHH
T ss_pred             hHHHhhc-c-----cHHHHHHHHhcccccccH
Confidence            3322100 0     013478889999999975

>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=99.97  E-value=2.9e-31  Score=285.19  Aligned_cols=245  Identities=25%  Similarity=0.403  Sum_probs=194.0

Q ss_pred             CCCCCCCccchHHHHHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhh-cC-CccEEEEEEecCCCC--hhHH
Q 038205          117 IPRFFSSFETTESACNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NN-IFDKVGIATVSQDPS--IINV  190 (375)
Q Consensus       117 ~~~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~-~f~~~~wv~~~~~~~--~~~~  190 (375)
                      +|+....|+||++++++|.++|.  .++.++|+|+||||+||||||++++++.+. .. .++.++|+++++..+  ....
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            56777889999999999999995  356789999999999999999999998653 33 456788999988543  4445


Q ss_pred             HHHHHHHhCCCCC-----CCCHHHHHHHHHHHhhhcCCC--cEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChh
Q 038205          191 QSELVKSLGWALT-----EKDEEDRADRLRLMFSESKSR--KILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQ  263 (375)
Q Consensus       191 ~~~i~~~l~~~~~-----~~~~~~~~~~l~~~~~~l~~k--r~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~  263 (375)
                      +..++..+.....     ....+.....++.   .+.++  |+||||||+|+..+|..+       .+||+||||||++.
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~---~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRV---LMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHH---HTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTT
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHH---HHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHH
Confidence            6777777764321     2344566666666   77776  999999999998777654       46899999999999


Q ss_pred             HHhh-hCCCCcccCCC-CChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHh
Q 038205          264 VCYR-MGCDPRIKLDA-LDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKL  341 (375)
Q Consensus       264 v~~~-~~~~~~~~l~~-L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~l  341 (375)
                      ++.. ......+++.+ |+.+++++||...++..  .+.+.+.+++|+++|+|+||||+.+|++|+.+. .+|..+++.+
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~--~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l  345 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK--KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQL  345 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC--STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC--hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHH
Confidence            8854 45557889996 99999999999988533  345567899999999999999999999999875 5799999999


Q ss_pred             hhcccCCCCCCC-CCchhhhhhhhhhccCCCCCC
Q 038205          342 QNAKLDKIEGID-KDSRGVYGCLKFSYDYLNGED  374 (375)
Q Consensus       342 ~~~~~~~~~~~~-~~~~~~~~~l~~sy~~L~~~~  374 (375)
                      .......+.... .....+..+|.+||+.||+++
T Consensus       346 ~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~  379 (1249)
T 3sfz_A          346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDI  379 (1249)
T ss_dssp             HSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTT
T ss_pred             hhhhhhhcccccccchHHHHHHHHHHHHhCCHHH
Confidence            876544443322 233679999999999999875

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.97  E-value=3.4e-31  Score=267.37  Aligned_cols=219  Identities=21%  Similarity=0.188  Sum_probs=171.0

Q ss_pred             ccchHHHHHHHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCCCChhHHHHHHHHHhCC-
Q 038205          124 FETTESACNQIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQDPSIINVQSELVKSLGW-  200 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l~~-  200 (375)
                      .+||+.++++|.++|.. ++.++|+|+||||+||||||+.++++.+...+|+. ++|+++++.++...++..++..++. 
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            48999999999999876 55789999999999999999999998766678987 9999999998888888877775421 


Q ss_pred             --CCC--CC-------CHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhhhC
Q 038205          201 --ALT--EK-------DEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMG  269 (375)
Q Consensus       201 --~~~--~~-------~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~~~  269 (375)
                        ...  ..       +.+.....++.+++.+.++|+||||||+|+...|+.+.       +||+||||||+..++..+.
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l~  282 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFLS  282 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHHH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhcC
Confidence              111  00       11334555666444568899999999999988887652       6899999999999886544


Q ss_pred             CCCcccCC------CCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCC--CHHHHHHHHHHh
Q 038205          270 CDPRIKLD------ALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLR--TADEWNVALDKL  341 (375)
Q Consensus       270 ~~~~~~l~------~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~--~~~~w~~~l~~l  341 (375)
                      ....+.++      +|+.+|||+||.+.++..     ..++..+   .|+|+||||+++|+.|+.+  +.++|+..    
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-----~eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~----  350 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHV----  350 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-----TTTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHC----
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHHcCCC-----HHHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcC----
Confidence            43456666      999999999999986432     1233333   3999999999999999977  67888652    


Q ss_pred             hhcccCCCCCCCCCchhhhhhhhhhccCCCCCC
Q 038205          342 QNAKLDKIEGIDKDSRGVYGCLKFSYDYLNGED  374 (375)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~  374 (375)
                                   ....+..+|.+||+.||+++
T Consensus       351 -------------~~~~I~aaLelSYd~Lp~ee  370 (1221)
T 1vt4_I          351 -------------NCDKLTTIIESSLNVLEPAE  370 (1221)
T ss_dssp             -------------SCHHHHHHHHHHHHHSCTTH
T ss_pred             -------------ChhHHHHHHHHHHHhCCHHH
Confidence                         12469999999999999864

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.97  E-value=1.4e-29  Score=252.18  Aligned_cols=243  Identities=27%  Similarity=0.417  Sum_probs=181.5

Q ss_pred             CCCCCCCccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhh-cCCc-cEEEEEEecCCCChhHHHH
Q 038205          117 IPRFFSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ-NNIF-DKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       117 ~~~~~~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~f-~~~~wv~~~~~~~~~~~~~  192 (375)
                      +|+....|+||+.++++|.++|..  ++.++|+|+||||+||||||..++++... ..+| +.++|++++... ...++.
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~-~~~~~~  197 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQD-KSGLLM  197 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCC-HHHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCc-hHHHHH
Confidence            467778899999999999999963  45789999999999999999999988654 5678 479999998763 333333


Q ss_pred             ---HHHHHhCCC-----CCCCCHHHHHHHHHHHhhhcCC--CcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          193 ---ELVKSLGWA-----LTEKDEEDRADRLRLMFSESKS--RKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       193 ---~i~~~l~~~-----~~~~~~~~~~~~l~~~~~~l~~--kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                         .++..++..     ....+.......+..   .+.+  +++||||||+|+...+..+       .+|++||||||+.
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~---~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~  267 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRI---LMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDK  267 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHH---HHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHH---HHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCc
Confidence               344455421     122344555566665   5544  7999999999987666543       4579999999999


Q ss_pred             hHHhhhCCCCccc---CCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHH
Q 038205          263 QVCYRMGCDPRIK---LDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALD  339 (375)
Q Consensus       263 ~v~~~~~~~~~~~---l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~  339 (375)
                      .++..+.. ..++   +++|+.+++++||...++..  .....+.+.+|+++|+|+||||..+|+.|+.+. .+|..+++
T Consensus       268 ~~~~~~~~-~~~~v~~l~~L~~~ea~~L~~~~~~~~--~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~  343 (591)
T 1z6t_A          268 SVTDSVMG-PKYVVPVESSLGKEKGLEILSLFVNMK--KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLK  343 (591)
T ss_dssp             GGGTTCCS-CEEEEECCSSCCHHHHHHHHHHHHTSC--GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHH
T ss_pred             HHHHhcCC-CceEeecCCCCCHHHHHHHHHHHhCCC--cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHH
Confidence            88765432 2333   36899999999999998742  223356789999999999999999999998763 47999999


Q ss_pred             HhhhcccCCCCCC-CCCchhhhhhhhhhccCCCCCC
Q 038205          340 KLQNAKLDKIEGI-DKDSRGVYGCLKFSYDYLNGED  374 (375)
Q Consensus       340 ~l~~~~~~~~~~~-~~~~~~~~~~l~~sy~~L~~~~  374 (375)
                      .+.......+... .....++..+|..||+.||+++
T Consensus       344 ~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~  379 (591)
T 1z6t_A          344 QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDI  379 (591)
T ss_dssp             HHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTT
T ss_pred             HHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHH
Confidence            8887543333221 1234679999999999999874

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.62  E-value=2.6e-15  Score=139.06  Aligned_cols=193  Identities=15%  Similarity=0.115  Sum_probs=126.4

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC------ChhHHHHH
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP------SIINVQSE  193 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~------~~~~~~~~  193 (375)
                      ....|+||+++++.|.+++..+  +++.|+|++|+|||||++.+.+...       .+|+......      +...++..
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHHHHH
Confidence            4467899999999999998764  7999999999999999999987641       5676654322      45556666


Q ss_pred             HHHHhCC-----------------CC--CCCCHHHHHHHHHHHhhhcCC-CcEEEEEeCCCCccc---------ccccCC
Q 038205          194 LVKSLGW-----------------AL--TEKDEEDRADRLRLMFSESKS-RKILVILDDVWKELD---------LETIGI  244 (375)
Q Consensus       194 i~~~l~~-----------------~~--~~~~~~~~~~~l~~~~~~l~~-kr~LlVlDdv~~~~~---------~~~l~~  244 (375)
                      +...+..                 ..  ...........+..   .... ++++|||||++....         +..+..
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~  157 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELND---LGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAY  157 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHH---HHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHH---HHhccCCEEEEEeCHHHHhccCccchhhHHHHHHH
Confidence            6655432                 00  01122333333333   3322 389999999976432         121211


Q ss_pred             CCCCCCCCcEEEEEeCChhHHhhh-----------CC-CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHc
Q 038205          245 PVGDRDNCCKILLTTRLQQVCYRM-----------GC-DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADEC  312 (375)
Q Consensus       245 ~l~~~~~gs~IivTTr~~~v~~~~-----------~~-~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~  312 (375)
                      .. ...++.++|+|++.......+           +. ...+++.+|+.+|+.+++...+...... ...+.+..|+..|
T Consensus       158 ~~-~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~-~~~~~~~~i~~~t  235 (350)
T 2qen_A          158 AY-DSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD-VPENEIEEAVELL  235 (350)
T ss_dssp             HH-HHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC-CCHHHHHHHHHHH
T ss_pred             HH-HhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHh
Confidence            11 112467899998876532211           11 2368999999999999998765321111 1246778999999


Q ss_pred             CCchhHHHHHHHHh
Q 038205          313 KGLPLAIKAVGSAL  326 (375)
Q Consensus       313 ~glPlai~~i~~~L  326 (375)
                      +|+|+++..++..+
T Consensus       236 gG~P~~l~~~~~~~  249 (350)
T 2qen_A          236 DGIPGWLVVFGVEY  249 (350)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99999999988654

>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=99.59  E-value=7.3e-15  Score=136.37  Aligned_cols=191  Identities=17%  Similarity=0.188  Sum_probs=120.8

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC-----CChhHHHHHH
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD-----PSIINVQSEL  194 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~i  194 (375)
                      ....|+||+++++.|.+ +..   +++.|+|++|+|||||++.+.+....     ..+|+.....     .+....+..+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            34678999999999999 765   69999999999999999999987642     2467776542     2334444444


Q ss_pred             HHHhC-------------CCC-----------------CCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----cc
Q 038205          195 VKSLG-------------WAL-----------------TEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----DL  239 (375)
Q Consensus       195 ~~~l~-------------~~~-----------------~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----~~  239 (375)
                      ...+.             ...                 ...........+.+   ... ++++|||||++...     ++
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~---~~~-~~~vlvlDe~~~~~~~~~~~~  157 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ---ASK-DNVIIVLDEAQELVKLRGVNL  157 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH---TCS-SCEEEEEETGGGGGGCTTCCC
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHh---cCC-CCeEEEEECHHHhhccCchhH
Confidence            33321             000                 01112222233322   222 49999999997532     22


Q ss_pred             cccCCCCCCCCCCcEEEEEeCChhHHhh----------h-CC-CCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHH
Q 038205          240 ETIGIPVGDRDNCCKILLTTRLQQVCYR----------M-GC-DPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSK  306 (375)
Q Consensus       240 ~~l~~~l~~~~~gs~IivTTr~~~v~~~----------~-~~-~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~  306 (375)
                      ..+...+....++.++|+|++.......          . +. ...+.+.+|+.+++.+++...+.. ......   . .
T Consensus       158 ~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~---~-~  233 (357)
T 2fna_A          158 LPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD---Y-E  233 (357)
T ss_dssp             HHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC---H-H
T ss_pred             HHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc---H-H
Confidence            1111111111246789999998653221          1 11 246889999999999999876531 111222   1 7


Q ss_pred             HHHHHcCCchhHHHHHHHHhc
Q 038205          307 RVADECKGLPLAIKAVGSALR  327 (375)
Q Consensus       307 ~i~~~~~glPlai~~i~~~L~  327 (375)
                      .|+..|+|+|+++..++..+.
T Consensus       234 ~i~~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          234 VVYEKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHc
Confidence            899999999999999987764

>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=99.58  E-value=3e-14  Score=135.05  Aligned_cols=219  Identities=19%  Similarity=0.154  Sum_probs=138.9

Q ss_pred             CCccchHHHHHHHHHHH-hc------CCCcEEEE--EcCCCchHHHHHHHHHhhhhhc---CCcc-EEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEAL-KK------DSTKMVGL--HGLGGVGKTTLAKFVGNQLRQN---NIFD-KVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l-~~------~~~~vi~I--~G~~GiGKTtLa~~v~~~~~~~---~~f~-~~~wv~~~~~~~~~  188 (375)
                      ..++||+++++.|.+++ ..      ...+.+.|  +|++|+|||||++.+++.....   ..+. .++|+......+..
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            56899999999999988 42      24567777  9999999999999999876542   1122 35677766777888


Q ss_pred             HHHHHHHHHhCCCCC--CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--------cccccCCCC---CCCC--CCc
Q 038205          189 NVQSELVKSLGWALT--EKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--------DLETIGIPV---GDRD--NCC  253 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~--~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--------~~~~l~~~l---~~~~--~gs  253 (375)
                      .++..++..++....  ..+.......+...+. -.+++++|||||++...        .+..+...+   +..+  ...
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLY-VENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH-HHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHH-hcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            999999999876433  2233444455555222 12679999999997632        222221111   1112  345


Q ss_pred             EEEEEeCChhHHhhh--------CC-CCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHcC------Cchh
Q 038205          254 KILLTTRLQQVCYRM--------GC-DPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECK------GLPL  317 (375)
Q Consensus       254 ~IivTTr~~~v~~~~--------~~-~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~~~------glPl  317 (375)
                      .+|+||+...+...+        .. ...+.+.+|+.++++++|...+.. .....-..+....|++.|+      |.|.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~  260 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSAR  260 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHH
Confidence            688888765432111        11 123899999999999999865421 0011122567889999999      9997


Q ss_pred             HHHHHHHHh-c-----C---CCHHHHHHHHHHh
Q 038205          318 AIKAVGSAL-R-----L---RTADEWNVALDKL  341 (375)
Q Consensus       318 ai~~i~~~L-~-----~---~~~~~w~~~l~~l  341 (375)
                      .+..+.... .     .   -+.+.+..++...
T Consensus       261 ~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~  293 (412)
T 1w5s_A          261 RAIVALKMACEMAEAMGRDSLSEDLVRKAVSEN  293 (412)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            665543321 1     1   1455666666544

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.53  E-value=2.4e-14  Score=109.87  Aligned_cols=80  Identities=14%  Similarity=0.109  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHhhhchhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHH
Q 038205            7 IASKLGELLVDATIKQARYLFCFNSIVKELEDKETNLKKEKDGINERVEQERQKHCAIVVEKDVEKWLADVVKEMADVRT   86 (375)
Q Consensus         7 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~~~Wl~~l~~~~~d~ed   86 (375)
                      +++.++++|.+.+.+++..       +.++++++++|+++|..|+++|.+|+.+.. ...++.++.|+++||+++||+||
T Consensus         2 ~v~~ll~KL~~ll~~E~~l-------~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~-~~~d~~vk~W~~~vrdlaYD~ED   73 (115)
T 3qfl_A            2 AISNLIPKLGELLTEEFKL-------HKGVKKNIEDLGKELESMNAALIKIGEVPR-EQLDSQDKLWADEVRELSYVIED   73 (115)
T ss_dssp             TTCSHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHTTSCG-GGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHH-------HhchHHHHHHHHHHHHHHHHHHHHHHHhcc-ccCCHHHHHHHHHHHHHHHHHHH
Confidence            4567888999999988665       778889999999999999999999998521 12689999999999999999999


Q ss_pred             HHHHHhhh
Q 038205           87 LKAKIDKK   94 (375)
Q Consensus        87 ~~d~~~~~   94 (375)
                      ++|+|.+.
T Consensus        74 ~iD~f~~~   81 (115)
T 3qfl_A           74 VVDKFLVQ   81 (115)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999866

>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=99.52  E-value=1.6e-13  Score=119.93  Aligned_cols=200  Identities=15%  Similarity=0.134  Sum_probs=119.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++||+..++.|..++..+. .+.+.|+|++|+||||||+.+++.......+..      ........ ...+..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~------~~~~~~~~-~~~~~~   91 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA------TPCGVCDN-CREIEQ   91 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS------SCCSCSHH-HHHHHT
T ss_pred             CccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCcccHH-HHHHhc
Confidence            5566789999999999999987654 458999999999999999999887653221100      00000000 011110


Q ss_pred             HhCCC---CCCCCHHHHHHHHHHHhhh-----cCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChhH-H
Q 038205          197 SLGWA---LTEKDEEDRADRLRLMFSE-----SKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQV-C  265 (375)
Q Consensus       197 ~l~~~---~~~~~~~~~~~~l~~~~~~-----l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~v-~  265 (375)
                      .....   ..... ......+..++..     ..+++.+||+||++..  ..+..+...+.....+..+|+||+.... .
T Consensus        92 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           92 GRFVDLIEIDAAS-RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TCCSSEEEEETTC-GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             cCCcceEEecCcc-cccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            00000   00000 0011112222222     2457899999999753  3344443333333456788888876432 1


Q ss_pred             h-hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHh
Q 038205          266 Y-RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSAL  326 (375)
Q Consensus       266 ~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L  326 (375)
                      . .......+.+.+++.++..+++...+.... ..-..+..+.|++.|+|.|..+..+...+
T Consensus       171 ~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1 122335789999999999999998774221 11225667899999999999987765433

>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=99.47  E-value=1.3e-12  Score=122.52  Aligned_cols=214  Identities=15%  Similarity=0.134  Sum_probs=138.2

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----C--ccEEEEEEecCCC-ChhHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----I--FDKVGIATVSQDP-SIINV  190 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~--f~~~~wv~~~~~~-~~~~~  190 (375)
                      ..++||+++++.+..++..    +..+.+.|+|++|+||||||+.+++......    .  ....+|++..... +...+
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            5689999999999877743    4467899999999999999999998764321    1  2346777766666 78888


Q ss_pred             HHHHHHHh-CCCCC--CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-------ccccCCCCCCCCCCcEEEEEeC
Q 038205          191 QSELVKSL-GWALT--EKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-------LETIGIPVGDRDNCCKILLTTR  260 (375)
Q Consensus       191 ~~~i~~~l-~~~~~--~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-------~~~l~~~l~~~~~gs~IivTTr  260 (375)
                      +..++..+ +....  ..+.......+..   .+..++.+|||||++....       +..+....    .+..+|+||+
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~---~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~  172 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKN---GTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISN  172 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHH---HHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECS
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHH---HhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEEC
Confidence            88888887 32211  1222344444444   6666666999999975421       22222111    5678898888


Q ss_pred             ChhH----Hhhh--CCCCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHcC---Cchh-HHHHHHHHh--c
Q 038205          261 LQQV----CYRM--GCDPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECK---GLPL-AIKAVGSAL--R  327 (375)
Q Consensus       261 ~~~v----~~~~--~~~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPl-ai~~i~~~L--~  327 (375)
                      ....    ....  .....+.+.+++.++..++|...+.. .....-..+..+.+++.|+   |.|. ++..+-...  .
T Consensus       173 ~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          173 DINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             STTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             CCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh
Confidence            6532    1111  11238899999999999999987531 0011112456678888888   8877 444433322  1


Q ss_pred             ---CC-CHHHHHHHHHHhh
Q 038205          328 ---LR-TADEWNVALDKLQ  342 (375)
Q Consensus       328 ---~~-~~~~w~~~l~~l~  342 (375)
                         .. +.+.+..+++...
T Consensus       253 ~~~~~i~~~~v~~~~~~~~  271 (384)
T 2qby_B          253 SGGGIIRKEHVDKAIVDYE  271 (384)
T ss_dssp             TSSSCCCHHHHHHHHHHHH
T ss_pred             cCCCccCHHHHHHHHHHHh
Confidence               22 6778887776654

>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=99.47  E-value=9.1e-13  Score=113.57  Aligned_cols=184  Identities=11%  Similarity=0.064  Sum_probs=116.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|+++.++.+..++.....+.+.|+|++|+|||++|+.+++.......-...+.+..+.......+.      
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------   86 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVR------   86 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHH------
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHH------
Confidence            55667889999999999999987766669999999999999999999876432111122333333222222111      


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhh---hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChhH-Hh-hhCC
Q 038205          198 LGWALTEKDEEDRADRLRLMFS---ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQV-CY-RMGC  270 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~---~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~v-~~-~~~~  270 (375)
                                    ..+..+..   ...+++.+||+||++..  .....+...+.....++.+|+||+.... .. ....
T Consensus        87 --------------~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r  152 (226)
T 2chg_A           87 --------------HKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (226)
T ss_dssp             --------------HHHHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             --------------HHHHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHh
Confidence                          11111111   11357899999999764  2233332223223456788888876432 11 1222


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      ...+.+.+++.++..+++.+.+...... -..+..+.+++.++|.|..+..+
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGVK-ITEDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3478999999999999999876421111 22466788999999999965443

>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=99.43  E-value=6.3e-13  Score=124.57  Aligned_cols=198  Identities=18%  Similarity=0.141  Sum_probs=127.1

Q ss_pred             CCCccchHHHHHHHHHHHh----cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC-ccEEEEEEecCCCChhHHHHHHH
Q 038205          121 FSSFETTESACNQIIEALK----KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI-FDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      +..++||+.+++.|.+++.    ....+.+.|+|++|+|||||++.+++....... -...+|+......+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            3678999999999999886    345678999999999999999999987754311 22456777666667777888887


Q ss_pred             HHhCCCCCC--CCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc------cccccCCCCCC-CCCCcEEEEEeCChhHHh
Q 038205          196 KSLGWALTE--KDEEDRADRLRLMFSESKSRKILVILDDVWKEL------DLETIGIPVGD-RDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       196 ~~l~~~~~~--~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~------~~~~l~~~l~~-~~~gs~IivTTr~~~v~~  266 (375)
                      ..++.....  .+.......+...+.. .+++.+|||||++...      .+..+...+.. ...+..+|+||+......
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~-~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~  177 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRD-YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVD  177 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHT-CCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGG
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhc-cCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHh
Confidence            777643322  2234444444442221 3458999999986531      22222111110 233567788888654322


Q ss_pred             hhC-----C--CCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHcC---CchhHH
Q 038205          267 RMG-----C--DPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECK---GLPLAI  319 (375)
Q Consensus       267 ~~~-----~--~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPlai  319 (375)
                      .+.     .  ...+.+.+++.++..+++...+.. .....-.....+.+++.++   |.|..+
T Consensus       178 ~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~  241 (386)
T 2qby_A          178 LLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRA  241 (386)
T ss_dssp             GCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHH
T ss_pred             hhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHH
Confidence            211     1  147899999999999999986531 1111223566777888887   999844

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.43  E-value=2.7e-12  Score=120.33  Aligned_cols=217  Identities=16%  Similarity=0.108  Sum_probs=137.5

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEEecCCCChhHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      ..++||+.+++.+..++..    ...+.+.|+|++|+||||+|+.+++.....    +.-...+|++.....+...++..
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            6789999999999998843    456789999999999999999999877432    11124567777777788889999


Q ss_pred             HHHHhCCCCCC--CCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCccc----cccc---CCCCCCC--CCCcEEEEEeC
Q 038205          194 LVKSLGWALTE--KDEEDRADRLRLMFSES--KSRKILVILDDVWKELD----LETI---GIPVGDR--DNCCKILLTTR  260 (375)
Q Consensus       194 i~~~l~~~~~~--~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~~----~~~l---~~~l~~~--~~gs~IivTTr  260 (375)
                      ++..++.....  .+.......+..   .+  .+++.+|+|||++....    .+.+   .......  ..+..+|.||+
T Consensus        99 l~~~l~~~~~~~~~~~~~~~~~l~~---~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           99 IAEAVGVRVPFTGLSVGEVYERLVK---RLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHSCCCCSSCCCHHHHHHHHHH---HHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHH---HHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            99998754332  223444444444   44  45689999999985421    1111   1111111  34567787877


Q ss_pred             ChhH--------HhhhCCCCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHcC---Cchh-HHHHHHHHhc
Q 038205          261 LQQV--------CYRMGCDPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADECK---GLPL-AIKAVGSALR  327 (375)
Q Consensus       261 ~~~v--------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPl-ai~~i~~~L~  327 (375)
                      ....        ...+.. ..+.+.+++.++..+++...+.. .....-..+..+.+++.++   |.|- ++..+.....
T Consensus       176 ~~~~~~~l~~~l~~r~~~-~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~  254 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGE-VELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGE  254 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTS-EECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             CCchHhhhCHHHHhcCCC-eEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            6522        221111 47899999999999999987531 0001111345677888887   9994 3333322221


Q ss_pred             -------CC-CHHHHHHHHHHhh
Q 038205          328 -------LR-TADEWNVALDKLQ  342 (375)
Q Consensus       328 -------~~-~~~~w~~~l~~l~  342 (375)
                             .. +.+.+..++....
T Consensus       255 ~a~~~~~~~i~~~~v~~a~~~~~  277 (387)
T 2v1u_A          255 IAERRREERVRREHVYSARAEIE  277 (387)
T ss_dssp             HHHHTTCSCBCHHHHHHHHHHHH
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHh
Confidence                   12 6777777766553

>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=99.36  E-value=3.3e-11  Score=113.11  Aligned_cols=198  Identities=14%  Similarity=0.109  Sum_probs=131.4

Q ss_pred             CCccchHHHHHHHHHHHhc----CCCc--EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          122 SSFETTESACNQIIEALKK----DSTK--MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~----~~~~--vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ..++||+.+++.|..++..    ....  .+.|+|++|+|||||++.+++....... ..++++..+...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcC-eeEEEEeCccCCCHHHHHHHHH
Confidence            5689999999999998854    3344  8999999999999999999988764311 2456777667777888999999


Q ss_pred             HHhCCCCCC--CCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCC-C---CCcEEEEEeCChhHHhh
Q 038205          196 KSLGWALTE--KDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDR-D---NCCKILLTTRLQQVCYR  267 (375)
Q Consensus       196 ~~l~~~~~~--~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~-~---~gs~IivTTr~~~v~~~  267 (375)
                      ..++.....  .+.......+...+.. .+++.+|||||++..  ..+..+...+... .   .+..+|++|+...+...
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~-~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~  174 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRE-RDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  174 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHH-TTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhh-cCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH
Confidence            988654322  2344455555553222 356899999999764  2222222222111 1   36788888887644322


Q ss_pred             hC-------CCCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHc---------CCchhHHHH
Q 038205          268 MG-------CDPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRVADEC---------KGLPLAIKA  321 (375)
Q Consensus       268 ~~-------~~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~~---------~glPlai~~  321 (375)
                      +.       ....+.+.+++.++..+++...+.. .....-..+..+.+++.+         +|.|-.+..
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~  245 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAID  245 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHH
Confidence            21       1136899999999999999887631 001122256778899999         788755433

>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=99.33  E-value=6.7e-12  Score=114.77  Aligned_cols=187  Identities=15%  Similarity=0.153  Sum_probs=116.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|++..++.|..++..+..+.+.|+|++|+||||+|+.+++...........+++..+.....          
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~----------   86 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGI----------   86 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSH----------
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccCh----------
Confidence            5667789999999999999998876556999999999999999999987642211112333332222121          


Q ss_pred             hCCCCCCCCHHHHHHHHHHHh---hhc-CCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChhH-Hhh-hC
Q 038205          198 LGWALTEKDEEDRADRLRLMF---SES-KSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQV-CYR-MG  269 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~---~~l-~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~v-~~~-~~  269 (375)
                                ......+..+.   ..+ .+++.++|+||++..  ..+..+...+.....++.+|+||+...- ... ..
T Consensus        87 ----------~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~s  156 (323)
T 1sxj_B           87 ----------DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  156 (323)
T ss_dssp             ----------HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             ----------HHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHh
Confidence                      11111222211   022 446899999999763  2333332223223356788888865322 111 22


Q ss_pred             CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHHHHH
Q 038205          270 CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAVGSA  325 (375)
Q Consensus       270 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i~~~  325 (375)
                      ....+.+.+++.++..+++...+...... --.+..+.|++.|+|.|. ++..+...
T Consensus       157 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          157 QCAILRYSKLSDEDVLKRLLQIIKLEDVK-YTNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hceEEeecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            33578999999999999999876421111 124667889999999995 45554433

>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=99.20  E-value=5e-11  Score=109.09  Aligned_cols=184  Identities=13%  Similarity=0.070  Sum_probs=113.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|+++.++.+..++..+..+.+.|+|++|+||||+|+.+++.......-...+.+..+.....          
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~----------   90 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI----------   90 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH----------
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCch----------
Confidence            6667889999999999999998877667999999999999999999987642211011222222211000          


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhh--hc-CCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChhH-Hhh-hCC
Q 038205          198 LGWALTEKDEEDRADRLRLMFS--ES-KSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQV-CYR-MGC  270 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~--~l-~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~v-~~~-~~~  270 (375)
                                ......+.....  .+ .+++.++|+||++..  .....+...+.....++++|+||....- ... ...
T Consensus        91 ----------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  160 (327)
T 1iqp_A           91 ----------NVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  160 (327)
T ss_dssp             ----------HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             ----------HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh
Confidence                      000111111110  12 257889999999754  2333333223223456788888876432 111 112


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      ...+.+.+++.++...++...+...... --.+..+.|++.++|.|..+..+
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~~~~~  211 (327)
T 1iqp_A          161 CAIFRFRPLRDEDIAKRLRYIAENEGLE-LTEEGLQAILYIAEGDMRRAINI  211 (327)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTCE-ECHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHCCCCHHHHHHH
Confidence            2468999999999999998876422211 12466788999999999865443

>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=99.12  E-value=6.7e-10  Score=101.20  Aligned_cols=185  Identities=11%  Similarity=0.057  Sum_probs=113.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|++..++.+.+++..+..+.+.++|++|+|||++|+.+.+.......-...+.+..+......         
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~---------   83 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGID---------   83 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTT---------
T ss_pred             CCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChH---------
Confidence            55667889999999999999877765569999999999999999998876321110111223322211100         


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChh-HHh-hhCCCC
Q 038205          198 LGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQ-VCY-RMGCDP  272 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~-v~~-~~~~~~  272 (375)
                              ........+... ..+ .+++.++|+|+++..  .....+...+.....++.+|+||.... +.. ......
T Consensus        84 --------~~~~~~~~~~~~-~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  154 (319)
T 2chq_A           84 --------VVRHKIKEFART-APIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (319)
T ss_dssp             --------TSSHHHHHHHHS-CCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCE
T ss_pred             --------HHHHHHHHHHhc-CCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCe
Confidence                    000111111110 012 256889999998754  233334334433345677888876543 211 122335


Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      .+.+.+++.++...++...+...... -..+..+.+++.++|.|..+..
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~l~~l~~~~~G~~r~~~~  202 (319)
T 2chq_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK-ITEDGLEALIYISGGDFRKAIN  202 (319)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTCCC-BCHHHHHHHHHTTTTCHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHH
Confidence            78999999999999998876432211 2245678888999999886543

>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=99.08  E-value=9.6e-10  Score=102.50  Aligned_cols=197  Identities=16%  Similarity=0.146  Sum_probs=112.8

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|++..++.|...+..+. .+.+.|+|++|+||||+|+.+.+.......+.       ............+..
T Consensus        12 p~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~-------~~~~~~~~~~~~~~~   84 (373)
T 1jr3_A           12 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREIEQ   84 (373)
T ss_dssp             CCSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC-------SSCCSSSHHHHHHHT
T ss_pred             CCchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC-------CCCCcccHHHHHHhc
Confidence            5667789999999999999987654 46789999999999999999988765321110       000000001111111


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChh-HH-
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQ-VC-  265 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~-v~-  265 (375)
                      .....      ......+.....+..+.. ...+++.++|+||++..  .....+...+.....+..+|++|.... +. 
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~  164 (373)
T 1jr3_A           85 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  164 (373)
T ss_dssp             SCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCH
T ss_pred             cCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcH
Confidence            00000      000011112222222100 12456789999999753  233333322322234567777776432 11 


Q ss_pred             hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          266 YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       266 ~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                      ........+++.+++.++...++...+..... .-..+....|++.++|.|..+..+
T Consensus       165 ~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~-~~~~~a~~~l~~~~~G~~r~~~~~  220 (373)
T 1jr3_A          165 TILSRCLQFHLKALDVEQIRHQLEHILNEEHI-AHEPRALQLLARAAEGSLRDALSL  220 (373)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHSSSCHHHHHHH
T ss_pred             HHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHCCCCHHHHHHH
Confidence            11223367899999999999999876632111 112456788999999999977654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.96  E-value=7.7e-09  Score=93.50  Aligned_cols=167  Identities=11%  Similarity=0.085  Sum_probs=102.7

Q ss_pred             ccchHHHHHHHHHHHh----cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC---Ccc--EEEEEEecCCCChhHHHHHH
Q 038205          124 FETTESACNQIIEALK----KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN---IFD--KVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f~--~~~wv~~~~~~~~~~~~~~i  194 (375)
                      ..+|++++++|...|.    .+.+..+.|+|++|+|||++++.+++......   ...  .++.++.....+...++..|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            4589999999887763    45678999999999999999999999886432   111  34556656667888899999


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhc---CCCcEEEEEeCCCCcccccccCCCCC---CCCCCcEEEEEeCChh-----
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSES---KSRKILVILDDVWKELDLETIGIPVG---DRDNCCKILLTTRLQQ-----  263 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l---~~kr~LlVlDdv~~~~~~~~l~~~l~---~~~~gs~IivTTr~~~-----  263 (375)
                      ++++.......  ......+..++..+   .+++++++||+++...+-+.+...+.   .......||.++...+     
T Consensus       102 ~~~L~g~~~~~--~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          102 WFAISKENLCG--DISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHSCCC--C--CCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHhcCCCCCc--hHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence            99985431111  11123344433343   45789999999976532111211111   0111223344443321     


Q ss_pred             H----HhhhCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          264 V----CYRMGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       264 v----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      +    ...+. ...+.+.+++.+|..+++.+++.
T Consensus       180 L~~~v~SR~~-~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          180 INIMPSLKAH-FTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HHTCHHHHTT-EEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cchhhhccCC-ceEEEeCCCCHHHHHHHHHHHHH
Confidence            1    11221 14689999999999999998763

>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=98.94  E-value=7.6e-09  Score=94.51  Aligned_cols=194  Identities=15%  Similarity=0.122  Sum_probs=115.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++|++..+..+..++..     .....+.|+|++|+|||++|+.+++....  .   ..++..+.....     
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~--~---~~~~~~~~~~~~-----   77 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV--N---LRVTSGPAIEKP-----   77 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC--C---EEEECTTTCCSH-----
T ss_pred             cccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC--C---EEEEeccccCCh-----
Confidence            55677899999999888887742     34467899999999999999999887642  1   223332221111     


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCC--------C----------CCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVG--------D----------RDNC  252 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~--------~----------~~~g  252 (375)
                                     .+....+.    .-..+..+|+|||++...  ....+...+.        .          ..++
T Consensus        78 ---------------~~l~~~l~----~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~  138 (324)
T 1hqc_A           78 ---------------GDLAAILA----NSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  138 (324)
T ss_dssp             ---------------HHHHHHHT----TTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC
T ss_pred             ---------------HHHHHHHH----HhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCC
Confidence                           11111111    111356689999997642  1111110000        0          0123


Q ss_pred             cEEEEEeCChh-HHhh-hCC-CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhc--
Q 038205          253 CKILLTTRLQQ-VCYR-MGC-DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALR--  327 (375)
Q Consensus       253 s~IivTTr~~~-v~~~-~~~-~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~--  327 (375)
                      ..+|.||.... +... ... ...+.+.+++.++...++...+..... .-..+..+.+++.++|.|-.+..+...+.  
T Consensus       139 ~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          139 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV-RITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             CEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC-CCCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            56777666432 1111 111 247899999999999999887743221 12256778899999999988876654442  


Q ss_pred             -----C-C-CHHHHHHHHHHh
Q 038205          328 -----L-R-TADEWNVALDKL  341 (375)
Q Consensus       328 -----~-~-~~~~w~~~l~~l  341 (375)
                           . . +.+....++..+
T Consensus       218 a~~~~~~~i~~~~~~~~~~~~  238 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAAL  238 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHh
Confidence                 1 1 455666666554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.91  E-value=1.7e-09  Score=90.53  Aligned_cols=153  Identities=12%  Similarity=0.157  Sum_probs=88.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC-----CccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN-----IFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++||++.++.+.+.+.....+.+.|+|++|+|||++|+.+++......     .....+++..+.      +  
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~--   89 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------L--   89 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------H--
T ss_pred             hccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------H--
Confidence            455678999999999999999887778899999999999999999998765321     012233333211      0  


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc---------c-ccccCCCCCCCCCCcEEEEEeC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKEL---------D-LETIGIPVGDRDNCCKILLTTR  260 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~---------~-~~~l~~~l~~~~~gs~IivTTr  260 (375)
                        .   .   ...........+..++..+  .+++.+|+|||++...         . ...+...+ . ..+..+|.||.
T Consensus        90 --~---~---~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~-~-~~~~~~i~~~~  159 (195)
T 1jbk_A           90 --V---A---GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPAL-A-RGELHCVGATT  159 (195)
T ss_dssp             --H---T---TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHH-H-TTSCCEEEEEC
T ss_pred             --h---c---cCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhh-c-cCCeEEEEeCC
Confidence              0   0   0011122222333322222  4578899999996531         1 11111111 1 22456777776


Q ss_pred             ChhHHh-------hhCCCCcccCCCCChHHHHHHH
Q 038205          261 LQQVCY-------RMGCDPRIKLDALDQAEGLDLL  288 (375)
Q Consensus       261 ~~~v~~-------~~~~~~~~~l~~L~~~e~~~Lf  288 (375)
                      ......       .......+.+.+++.++..+++
T Consensus       160 ~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          160 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            554221       1122235788888887776543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.89  E-value=1.9e-08  Score=95.75  Aligned_cols=176  Identities=15%  Similarity=0.140  Sum_probs=107.6

Q ss_pred             CCCCCCccchHHHH---HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESAC---NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+..++|.+..+   ..|...+..+..+.+.|+|++|+||||+|+.+.+....  .     ++.++........++.+
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~--~-----f~~l~a~~~~~~~ir~~   94 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA--D-----VERISAVTSGVKEIREA   94 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTC--E-----EEEEETTTCCHHHHHHH
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCC--C-----eEEEEeccCCHHHHHHH
Confidence            67778899999988   78888888887788999999999999999999987642  1     22222221111122222


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEE-EeCChhH---Hhhh
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILL-TTRLQQV---CYRM  268 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~Iiv-TTr~~~v---~~~~  268 (375)
                      +..                ....  ...+++.+|+||+++..  ...+.+...+..  ....+|. ||.+...   ....
T Consensus        95 ~~~----------------a~~~--~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~  154 (447)
T 3pvs_A           95 IER----------------ARQN--RNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALL  154 (447)
T ss_dssp             HHH----------------HHHH--HHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHH
T ss_pred             HHH----------------HHHh--hhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHh
Confidence            111                1110  22467889999999754  223333222222  1234444 4444321   1222


Q ss_pred             CCCCcccCCCCChHHHHHHHHHHcCCC------CCCCCchHHHHHHHHHcCCchhHHH
Q 038205          269 GCDPRIKLDALDQAEGLDLLRKHAGID------VADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       269 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~------~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ....++.+.+++.++...++.+.+...      ....-..+..+.|++.++|.+-.+.
T Consensus       155 sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~ll  212 (447)
T 3pvs_A          155 SRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRAL  212 (447)
T ss_dssp             TTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHH
T ss_pred             CceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHH
Confidence            333578899999999999998876421      1111225667888888998877554

>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=98.89  E-value=3.2e-09  Score=92.42  Aligned_cols=174  Identities=16%  Similarity=0.116  Sum_probs=103.9

Q ss_pred             CCCCCccch---HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          119 RFFSSFETT---ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       119 ~~~~~~~gr---~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ..+..|++.   +..+..+..+...+..+.+.|+|++|+||||||+.+++.....  ...+.++..+.....      + 
T Consensus        25 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~------~-   95 (242)
T 3bos_A           25 ETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGIHASI------S-   95 (242)
T ss_dssp             CSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS------C-
T ss_pred             CChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH------H-
Confidence            455667753   4667777777766667899999999999999999999887643  223455554321100      0 


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----ccccCCCCCC-CCCC-cEEEEEeCCh-------
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----LETIGIPVGD-RDNC-CKILLTTRLQ-------  262 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~g-s~IivTTr~~-------  262 (375)
                                         .+.+..+ .++.+||+||++....    ...+...+.. ...+ .++|+||+..       
T Consensus        96 -------------------~~~~~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~  155 (242)
T 3bos_A           96 -------------------TALLEGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFV  155 (242)
T ss_dssp             -------------------GGGGTTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCC
T ss_pred             -------------------HHHHHhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHh
Confidence                               0000012 3456999999875421    1112111110 0112 2477777632       


Q ss_pred             --hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHH
Q 038205          263 --QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       263 --~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i  322 (375)
                        .+...+.....+.+.+++.++..+++...+.... ..-..+..+.+++.++|.+-.+..+
T Consensus       156 ~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~g~~r~l~~~  216 (242)
T 3bos_A          156 LPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRG-LQLPEDVGRFLLNRMARDLRTLFDV  216 (242)
T ss_dssp             CHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTT-CCCCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             hhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHccCCHHHHHHH
Confidence              2222222225789999999999999998764211 1122567788999999988766543

>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=98.86  E-value=5.1e-09  Score=96.77  Aligned_cols=195  Identities=15%  Similarity=0.174  Sum_probs=111.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc-EEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD-KVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|+++.++.+..++..+..+.+.|+|++|+||||+|+.+.+.......+. ....+..+..... ..+.+...
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  111 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGI-SIVREKVK  111 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCH-HHHTTHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccch-HHHHHHHH
Confidence            666788899999999999998877555599999999999999999988764211111 1222332222222 22222221


Q ss_pred             HhC-CCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCChh-HHhh-hCCC
Q 038205          197 SLG-WALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQQ-VCYR-MGCD  271 (375)
Q Consensus       197 ~l~-~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~~-v~~~-~~~~  271 (375)
                      .+. .........    ....   .-.+++-+|++|+++...  ....+...+.......++|++|.... +... ....
T Consensus       112 ~~~~~~~~~~~~~----~~~~---~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~  184 (353)
T 1sxj_D          112 NFARLTVSKPSKH----DLEN---YPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  184 (353)
T ss_dssp             HHHHSCCCCCCTT----HHHH---SCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HHhhhcccccchh----hccc---CCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccC
Confidence            110 000000000    0001   223456799999986532  22222222222233467777765432 1111 1112


Q ss_pred             CcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          272 PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       272 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      ..+.+.+++.++....+...+...... --.+..+.|++.++|.|-.+..
T Consensus       185 ~~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~l~~l~~~~~G~~r~~~~  233 (353)
T 1sxj_D          185 SKFRFKALDASNAIDRLRFISEQENVK-CDDGVLERILDISAGDLRRGIT  233 (353)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCC-CCHHHHHHHHHHTSSCHHHHHH
T ss_pred             ceEEeCCCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHHHH
Confidence            468899999999999998876422211 2256778999999999986543

>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=98.84  E-value=8.2e-08  Score=85.42  Aligned_cols=195  Identities=15%  Similarity=0.163  Sum_probs=106.5

Q ss_pred             CccchHHHHHHHHH-------HHh---cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          123 SFETTESACNQIIE-------ALK---KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       123 ~~~gr~~~~~~l~~-------~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      .++|....++++..       .+.   ....+.+.|+|++|+|||++|+.+++....    ..+ .+..+..        
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~----~~~-~i~~~~~--------  100 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF----PFI-KICSPDK--------  100 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC----SEE-EEECGGG--------
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC----CEE-EEeCHHH--------
Confidence            34555555555444       333   344678999999999999999999987532    111 1222210        


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc---------------ccccccCCCCCCCCCCcEEE
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE---------------LDLETIGIPVGDRDNCCKIL  256 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~---------------~~~~~l~~~l~~~~~gs~Ii  256 (375)
                           +    ...........+..++. ....+..+|+|||++..               ..+..+............||
T Consensus       101 -----~----~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii  171 (272)
T 1d2n_A          101 -----M----IGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLII  171 (272)
T ss_dssp             -----C----TTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEE
T ss_pred             -----h----cCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEE
Confidence                 0    00111111122222222 33467889999997542               11112211111122334567


Q ss_pred             EEeCChhHHhh---hCC-CCcccCCCCCh-HHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC------chhHHHHHHHH
Q 038205          257 LTTRLQQVCYR---MGC-DPRIKLDALDQ-AEGLDLLRKHAGIDVADKTMTDVSKRVADECKG------LPLAIKAVGSA  325 (375)
Q Consensus       257 vTTr~~~v~~~---~~~-~~~~~l~~L~~-~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g------lPlai~~i~~~  325 (375)
                      .||........   .+. ...+.+.+++. ++...++.+....      .......|++.+.|      ++-++..+-..
T Consensus       172 ~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~~~------~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a  245 (272)
T 1d2n_A          172 GTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGNF------KDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  245 (272)
T ss_dssp             EEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHTCS------CHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             EecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcCCC------CHHHHHHHHHHhcCCCccccHHHHHHHHHHH
Confidence            77776654332   122 25678888988 7777777654211      14567788888888      44444444433


Q ss_pred             hcCCCHHHHHHHHHHhhhcc
Q 038205          326 LRLRTADEWNVALDKLQNAK  345 (375)
Q Consensus       326 L~~~~~~~w~~~l~~l~~~~  345 (375)
                      ........+..++..+....
T Consensus       246 ~~~~~~~~~~~~~~~l~~~~  265 (272)
T 1d2n_A          246 LQMDPEYRVRKFLALLREEG  265 (272)
T ss_dssp             TTSCGGGHHHHHHHHHHHTS
T ss_pred             hhhchHHHHHHHHHHHHHcC
Confidence            33335567888887776653

>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=98.82  E-value=1.9e-08  Score=97.87  Aligned_cols=193  Identities=15%  Similarity=0.092  Sum_probs=108.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      |..+..++|++..++.|..++..                 +..+.+.|+|++|+||||+|+.+++...    + .++.+.
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in  109 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQN  109 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEe
Confidence            66678899999999999999864                 1347899999999999999999998773    2 223333


Q ss_pred             ecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-----ccccCCCCCCCCCCcEE
Q 038205          181 VSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-----LETIGIPVGDRDNCCKI  255 (375)
Q Consensus       181 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-----~~~l~~~l~~~~~gs~I  255 (375)
                      .+..... ..+...+..........   ........ .....+++.+|++|+++....     +..+...+..  .+..|
T Consensus       110 ~s~~~~~-~~~~~~i~~~~~~~~~~---~~~~~~~~-~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~i  182 (516)
T 1sxj_A          110 ASDVRSK-TLLNAGVKNALDNMSVV---GYFKHNEE-AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPL  182 (516)
T ss_dssp             TTSCCCH-HHHHHTGGGGTTBCCST---TTTTC-----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCE
T ss_pred             CCCcchH-HHHHHHHHHHhccccHH---HHHhhhhh-hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCE
Confidence            3333222 22222222211100000   00000000 001235788999999965311     1222111111  23346


Q ss_pred             EEEeCChh---HHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC-chhHHHHHH
Q 038205          256 LLTTRLQQ---VCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG-LPLAIKAVG  323 (375)
Q Consensus       256 ivTTr~~~---v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPlai~~i~  323 (375)
                      |+++....   +.........+.+.+++.++..+++...+....... -.+....|++.++| ++.++..+.
T Consensus       183 Ili~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i-~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          183 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKL-DPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC-CTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             EEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCcHHHHHHHHH
Confidence            65554322   222222335689999999999999887664211111 12456788999998 555565553

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.82  E-value=3.3e-08  Score=88.54  Aligned_cols=202  Identities=19%  Similarity=0.193  Sum_probs=113.8

Q ss_pred             CCCCCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          119 RFFSSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      ..+..++|.++.++.|.+.+..             .....+.|+|++|+|||+||+.+++.....     .+.+..+.-.
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~-----~~~v~~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT-----FIRVVGSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE-----EEEEEGGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehHHHH
Confidence            3456788999999988887632             346789999999999999999999876421     1222221110


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCC--
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVG--  247 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--  247 (375)
                                    ..............+..   .....+.+|+|||++...                .+..+...+.  
T Consensus        89 --------------~~~~~~~~~~~~~~~~~---~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~  151 (285)
T 3h4m_A           89 --------------KKFIGEGASLVKDIFKL---AKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF  151 (285)
T ss_dssp             --------------CCSTTHHHHHHHHHHHH---HHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTT
T ss_pred             --------------HhccchHHHHHHHHHHH---HHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCC
Confidence                          00000011111122222   334467899999986420                1111111111  


Q ss_pred             CCCCCcEEEEEeCChhHHh--hh---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC-chhHHHH
Q 038205          248 DRDNCCKILLTTRLQQVCY--RM---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG-LPLAIKA  321 (375)
Q Consensus       248 ~~~~gs~IivTTr~~~v~~--~~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPlai~~  321 (375)
                      ....+..||.||.......  ..   .....+.+...+.++..++|...+.......+  .....++..+.| .|-.+..
T Consensus       152 ~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED--VNLEEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             CSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHHCTTCCHHHHHH
T ss_pred             CCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc--CCHHHHHHHcCCCCHHHHHH
Confidence            1223567777887543221  11   12246889999999999999988753221111  124667777777 4544443


Q ss_pred             HHH------HhcC--C-CHHHHHHHHHHhhhc
Q 038205          322 VGS------ALRL--R-TADEWNVALDKLQNA  344 (375)
Q Consensus       322 i~~------~L~~--~-~~~~w~~~l~~l~~~  344 (375)
                      +..      ..+.  . +.+....++..+...
T Consensus       230 l~~~a~~~a~~~~~~~I~~~d~~~al~~~~~~  261 (285)
T 3h4m_A          230 ICTEAGMNAIRELRDYVTMDDFRKAVEKIMEK  261 (285)
T ss_dssp             HHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCcCCHHHHHHHHHHHHhc
Confidence            321      1122  2 677788877776554

>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=98.81  E-value=1.6e-08  Score=93.60  Aligned_cols=196  Identities=13%  Similarity=0.049  Sum_probs=106.0

Q ss_pred             CCCCCCccchHHHHHHHHHHH-hcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEE---------------
Q 038205          118 PRFFSSFETTESACNQIIEAL-KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVG---------------  177 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l-~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~---------------  177 (375)
                      |..+..++|++..++.+..++ ..+..+.+.|+|++|+||||+++.+.+......    .++...               
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~   89 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   89 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeec
Confidence            566778899999999999988 665544599999999999999999988532111    000000               


Q ss_pred             ---EEEecCC-CCh--hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCC
Q 038205          178 ---IATVSQD-PSI--INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDR  249 (375)
Q Consensus       178 ---wv~~~~~-~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~  249 (375)
                         ++.+... ...  ....++++..+.....-.   ..   +  .++.+.+++-++|||++....  ....+...+...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~---~~---~--~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~  161 (354)
T 1sxj_E           90 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD---FQ---D--SKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  161 (354)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             ccceEEecHhhcCCcchHHHHHHHHHHHHhcccc---cc---c--cccccCCCCeEEEEeCccccCHHHHHHHHHHHHhh
Confidence               0111100 000  001222222221100000   00   0  000123467799999997642  122222222212


Q ss_pred             CCCcEEEEEeCChh-HHh-hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCc-hHHHHHHHHHcCCchhHHHHH
Q 038205          250 DNCCKILLTTRLQQ-VCY-RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTM-TDVSKRVADECKGLPLAIKAV  322 (375)
Q Consensus       250 ~~gs~IivTTr~~~-v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~-~~~~~~i~~~~~glPlai~~i  322 (375)
                      ..++.+|++|++.. +.. .......+++.+++.++....+.+.+...... -- .+..+.|++.++|.+-.+..+
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ-LETKDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE-ECCSHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC-CCcHHHHHHHHHHcCCCHHHHHHH
Confidence            34578888887632 211 12233678999999999999998876421111 11 355678889999988755433

>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=98.77  E-value=1.5e-07  Score=83.05  Aligned_cols=181  Identities=17%  Similarity=0.133  Sum_probs=97.3

Q ss_pred             CCCCccchHHHHHHHHHHH---hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEAL---KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..++|.+..++.|.+++   ..         ...+.+.|+|++|+|||++|+.+++....  .   .+.+..+.-.+ 
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~--~---~~~~~~~~~~~-   77 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV--P---FLAMAGAEFVE-   77 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC--C---EEEEETTTTSS-
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC--C---EEEechHHHHh-
Confidence            4566788888777776554   21         23456889999999999999999987642  1   22233222110 


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----------------cccccCCCCCC--
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----------------DLETIGIPVGD--  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----------------~~~~l~~~l~~--  248 (375)
                                   .............+..   .....+.+|+|||++...                 .+..+...+..  
T Consensus        78 -------------~~~~~~~~~~~~~~~~---a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  141 (262)
T 2qz4_A           78 -------------VIGGLGAARVRSLFKE---ARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMG  141 (262)
T ss_dssp             -------------SSTTHHHHHHHHHHHH---HHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCC
T ss_pred             -------------hccChhHHHHHHHHHH---HHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcC
Confidence                         0000111112222222   333467899999997531                 01111111111  


Q ss_pred             CCCCcEEEEEeCChhHHh-h-hC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          249 RDNCCKILLTTRLQQVCY-R-MG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~-~-~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      ...+..||.||....... . ..   ....+.+...+.++-.+++...+...............+++.+.|.+- .|..+
T Consensus       142 ~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          142 TTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             TTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHH
Confidence            123456666776543211 1 11   225677889999999999988764222122222234778888888754 44433

>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=98.75  E-value=5.9e-08  Score=92.42  Aligned_cols=205  Identities=19%  Similarity=0.179  Sum_probs=115.9

Q ss_pred             CCCCcc-c--hHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          120 FFSSFE-T--TESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       120 ~~~~~~-g--r~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      .+..|+ |  .......+......+. ...+.|+|++|+||||||+.+++.......-..+++++..      .+..++.
T Consensus       103 tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~  176 (440)
T 2z4s_A          103 TFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLV  176 (440)
T ss_dssp             SGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHH
T ss_pred             ChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHH
Confidence            345565 4  2334445555544443 6789999999999999999999887543111223444332      2333444


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----ccccCCCCCC-CCCCcEEEEEeCCh--------
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----LETIGIPVGD-RDNCCKILLTTRLQ--------  262 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~gs~IivTTr~~--------  262 (375)
                      ..+...    ..    ..+..   .+..+..+|+|||++....    .+.+...+.. ...|..||+||++.        
T Consensus       177 ~~~~~~----~~----~~~~~---~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~  245 (440)
T 2z4s_A          177 DSMKEG----KL----NEFRE---KYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQ  245 (440)
T ss_dssp             HHHHTT----CH----HHHHH---HHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCC
T ss_pred             HHHHcc----cH----HHHHH---HhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHH
Confidence            333211    11    11222   3333677999999965321    1222111111 13467888888762        


Q ss_pred             -hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHH------hcCC--CHHH
Q 038205          263 -QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSA------LRLR--TADE  333 (375)
Q Consensus       263 -~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~------L~~~--~~~~  333 (375)
                       .+...+.....+.+.+++.++...++.+.+...... --.++...|++.++|.+-.+.-+-..      +..+  +.+.
T Consensus       246 ~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~-i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~  324 (440)
T 2z4s_A          246 DRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGE-LPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKE  324 (440)
T ss_dssp             HHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCC-CCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHH
T ss_pred             HHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence             233334444678999999999999998876411101 11345677889999988655322111      1222  6777


Q ss_pred             HHHHHHHhh
Q 038205          334 WNVALDKLQ  342 (375)
Q Consensus       334 w~~~l~~l~  342 (375)
                      ++.++..+.
T Consensus       325 ~~~~l~~~~  333 (440)
T 2z4s_A          325 AILLLKDFI  333 (440)
T ss_dssp             HHHHTSTTT
T ss_pred             HHHHHHHHh
Confidence            777776543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.75  E-value=3.7e-08  Score=89.32  Aligned_cols=150  Identities=15%  Similarity=0.170  Sum_probs=85.2

Q ss_pred             ccchHHHHHHHHHHHh---------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          124 FETTESACNQIIEALK---------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~---------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ++|.+..++.|.+.+.               ......+.|+|++|+|||++|+.+++...........-++.++..    
T Consensus        33 i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~----  108 (309)
T 3syl_A           33 LIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD----  108 (309)
T ss_dssp             SSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG----
T ss_pred             ccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH----
Confidence            5677777777765542               234557999999999999999999888765333222223333211    


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc-----------ccccccCCCCCCCCCCcEEEE
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE-----------LDLETIGIPVGDRDNCCKILL  257 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~Iiv  257 (375)
                              .+...............+..    .  +..+|+||+++..           .....+...+.....+..+|.
T Consensus       109 --------~l~~~~~g~~~~~~~~~~~~----~--~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~  174 (309)
T 3syl_A          109 --------DLVGQYIGHTAPKTKEVLKR----A--MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVIL  174 (309)
T ss_dssp             --------GTCCSSTTCHHHHHHHHHHH----H--TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEE
T ss_pred             --------HhhhhcccccHHHHHHHHHh----c--CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEE
Confidence                    01111111111222222222    2  3459999999732           122223222323344567888


Q ss_pred             EeCChhH----------HhhhCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          258 TTRLQQV----------CYRMGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       258 TTr~~~v----------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ||.....          ...+  ...+.+.+++.++...++...+.
T Consensus       175 ~~~~~~~~~~~~~~~~l~~R~--~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          175 AGYADRMENFFQSNPGFRSRI--AHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             EECHHHHHHHHHHSTTHHHHE--EEEEEECCCCHHHHHHHHHHHHH
T ss_pred             eCChHHHHHHHhhCHHHHHhC--CeEEEcCCcCHHHHHHHHHHHHH
Confidence            8764322          2221  25789999999999999988764

>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=98.71  E-value=5.5e-08  Score=88.82  Aligned_cols=173  Identities=12%  Similarity=0.093  Sum_probs=102.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|++..+..|..++..+. ...+.+.|++|+|||++|+.+.+....     ..+.++.+. .. ...++..  
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~-----~~~~i~~~~-~~-~~~i~~~--   92 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA-----DMMFVNGSD-CK-IDFVRGP--   92 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTE-----EEEEEETTT-CC-HHHHHTH--
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCC-----CEEEEcccc-cC-HHHHHHH--
Confidence            6677889999999999999998665 467788888999999999999887641     233333322 11 2222221  


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhh--hcCCCcEEEEEeCCCCcc---cccccCCCCCCCCCCcEEEEEeCChh-----HHh
Q 038205          197 SLGWALTEKDEEDRADRLRLMFS--ESKSRKILVILDDVWKEL---DLETIGIPVGDRDNCCKILLTTRLQQ-----VCY  266 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~--~l~~kr~LlVlDdv~~~~---~~~~l~~~l~~~~~gs~IivTTr~~~-----v~~  266 (375)
                                       +..+..  ...+++.+|++||++...   ....+...+.....++.+|+||....     +..
T Consensus        93 -----------------~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~s  155 (324)
T 3u61_B           93 -----------------LTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQS  155 (324)
T ss_dssp             -----------------HHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHH
T ss_pred             -----------------HHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHh
Confidence                             111111  223478899999998653   22222222221223467888877543     222


Q ss_pred             hhCCCCcccCCCCChHHHHHHHHH-------HcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          267 RMGCDPRIKLDALDQAEGLDLLRK-------HAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       267 ~~~~~~~~~l~~L~~~e~~~Lf~~-------~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      .+   ..+.+.+++.++-.+++..       .+........-.+....|++.++|.+-.+
T Consensus       156 R~---~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a  212 (324)
T 3u61_B          156 RC---RVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKT  212 (324)
T ss_dssp             HS---EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHH
T ss_pred             hC---cEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHH
Confidence            22   4689999998885443322       22211111111267788899998877643

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.71  E-value=8.9e-07  Score=80.70  Aligned_cols=179  Identities=16%  Similarity=0.165  Sum_probs=101.5

Q ss_pred             CCCCccchHHHHHHHHHHHh------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEALK------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..+.|.++.++.|.+.+.            ....+-+.|+|++|+|||+||+.+++.... .   ..+.+..+.-.  
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~-~---~~~~i~~~~l~--   83 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN-S---TFFSISSSDLV--   83 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS-C---EEEEEECCSSC--
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC-C---cEEEEEhHHHH--
Confidence            45667788888888877652            112468999999999999999999987621 1   12223222111  


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-------------ccccCCC---CCCCCC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-------------LETIGIP---VGDRDN  251 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-------------~~~l~~~---l~~~~~  251 (375)
                                  ..............+..   ....++.+|+||+++....             ...+...   +.....
T Consensus        84 ------------~~~~g~~~~~~~~lf~~---a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           84 ------------SKWLGESEKLVKNLFQL---ARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             ------------CSSCCSCHHHHHHHHHH---HHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             ------------hhhhhHHHHHHHHHHHH---HHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                        01111122222222222   3345788999999975310             0111111   111234


Q ss_pred             CcEEEEEeCChh-----HHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHHH
Q 038205          252 CCKILLTTRLQQ-----VCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKAV  322 (375)
Q Consensus       252 gs~IivTTr~~~-----v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~i  322 (375)
                      +..||.||....     +..  .....+.+...+.++-.+++..++....... .......|++.+.|.. -.|..+
T Consensus       149 ~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l~~la~~t~G~sgadl~~l  222 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSL-TEADFRELGRKTDGYSGADISII  222 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCC-CHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHcCCCCHHHHHHH
Confidence            455666665432     222  2335678888899999999998775322111 2456688999998874 345444

>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=98.70  E-value=1.2e-07  Score=87.19  Aligned_cols=181  Identities=11%  Similarity=0.064  Sum_probs=105.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|.+..++.|...+..++.+.+.++|++|+||||+|+.+++.......-..+.-+..+....           
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~-----------   89 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRG-----------   89 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCS-----------
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCccccc-----------
Confidence            666777889999999999888877655599999999999999999998765321101112222221111           


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhh---hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChh-HHh-hhCC
Q 038205          198 LGWALTEKDEEDRADRLRLMFS---ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQ-VCY-RMGC  270 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~---~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~-v~~-~~~~  270 (375)
                               .......+..+.+   ...+.+-++|+|+++..  .....+...+......+.+|++|.... +.. ....
T Consensus        90 ---------~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR  160 (340)
T 1sxj_C           90 ---------IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  160 (340)
T ss_dssp             ---------HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             ---------HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhh
Confidence                     1122222222111   12245779999998643  222222222211223466777765432 111 1122


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      ...+.+.+++.++..+.+...+...... --....+.+++.++|.+--+
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~~-i~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          161 CTRFRFQPLPQEAIERRIANVLVHEKLK-LSPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTCC-BCHHHHHHHHHHHTTCHHHH
T ss_pred             ceeEeccCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            2467899999999988888766321111 11456677888888877643

>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=98.68  E-value=3.9e-07  Score=83.57  Aligned_cols=171  Identities=11%  Similarity=0.022  Sum_probs=101.0

Q ss_pred             hHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcC--------------------CccEEEEEEecCCC
Q 038205          127 TESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNN--------------------IFDKVGIATVSQDP  185 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~~~~~  185 (375)
                      .++..+.+...+..++ .+.+.++|++|+|||++|+.+.+...-..                    +++ ..++..... 
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~-   84 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKG-   84 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTT-
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEecccc-
Confidence            4566777888777665 45799999999999999999988764221                    111 122221100 


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                                      ......++..+.+..+.. ...+++-++|+|+++..  .....+...+.....++.+|++|.+.
T Consensus        85 ----------------~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~  148 (334)
T 1a5t_A           85 ----------------KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREP  148 (334)
T ss_dssp             ----------------CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCG
T ss_pred             ----------------CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCCh
Confidence                            001112222222221100 12356789999999754  22233323333333456777777654


Q ss_pred             h-HHhh-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          263 Q-VCYR-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       263 ~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      + +... .+....+.+.+++.++..+.+.+....      ..+....+++.++|.|..+..
T Consensus       149 ~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~~------~~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          149 ERLLATLRSRCRLHYLAPPPEQYAVTWLSREVTM------SQDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             GGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCCC------CHHHHHHHHHHTTTCHHHHHH
T ss_pred             HhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcCC------CHHHHHHHHHHcCCCHHHHHH
Confidence            2 3222 233357899999999999999887611      145567899999999976643

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.68  E-value=7.2e-07  Score=81.87  Aligned_cols=173  Identities=15%  Similarity=0.116  Sum_probs=103.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++|++..++.+..++..     .....+.|+|++|+|||++|+.+.+....  .|   +.+..+...       
T Consensus        25 p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~--~~---~~~~~~~~~-------   92 (338)
T 3pfi_A           25 PSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSA--NI---KTTAAPMIE-------   92 (338)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTC--CE---EEEEGGGCC-------
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCC--Ce---EEecchhcc-------
Confidence            45677899999999999888753     34567899999999999999999877542  12   222222111       


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCC------------------CCCCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPV------------------GDRDNC  252 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l------------------~~~~~g  252 (375)
                                   ........+.    . ..+..+|+||+++...  ....+...+                  ....++
T Consensus        93 -------------~~~~~~~~~~----~-~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~  154 (338)
T 3pfi_A           93 -------------KSGDLAAILT----N-LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPK  154 (338)
T ss_dssp             -------------SHHHHHHHHH----T-CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCC
T ss_pred             -------------chhHHHHHHH----h-ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCC
Confidence                         1111111111    1 2356789999987531  111110000                  001123


Q ss_pred             cEEEEEeCChhH-Hh-hhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          253 CKILLTTRLQQV-CY-RMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       253 s~IivTTr~~~v-~~-~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      ..+|.+|..... .. ... ....+.+.+++.++...++.+.+.... ..-..+..+.|++.+.|.|-.+..
T Consensus       155 ~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~  225 (338)
T 3pfi_A          155 FTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN-KTCEEKAALEIAKRSRSTPRIALR  225 (338)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHHTTTTCHHHHHH
T ss_pred             eEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHCcCHHHHHH
Confidence            567766665322 11 111 225789999999999999988764221 112256678888999999965543

>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=98.65  E-value=5.7e-07  Score=83.28  Aligned_cols=181  Identities=13%  Similarity=0.112  Sum_probs=101.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHh------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEALK------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      +..+..++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++....     ..+.+..+.-.
T Consensus        80 ~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~  154 (357)
T 3d8b_A           80 PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLT  154 (357)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGC
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhh
Confidence            3445678899999988888763            234678999999999999999999887641     12333332211


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc-------------cccccCCCCC----
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL-------------DLETIGIPVG----  247 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~-------------~~~~l~~~l~----  247 (375)
                      .              ....    .....+..++. ....++.+|+||+++...             ....+...+.    
T Consensus       155 ~--------------~~~g----~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~  216 (357)
T 3d8b_A          155 S--------------KWVG----EGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATT  216 (357)
T ss_dssp             C--------------SSTT----HHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC---
T ss_pred             c--------------cccc----hHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccc
Confidence            1              0000    11111122111 223567899999984320             0111111111    


Q ss_pred             CCCCCcEEEEEeCChhH-Hhh-h-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC-chhHHHHH
Q 038205          248 DRDNCCKILLTTRLQQV-CYR-M-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG-LPLAIKAV  322 (375)
Q Consensus       248 ~~~~gs~IivTTr~~~v-~~~-~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPlai~~i  322 (375)
                      ....+..||.||..... ... . .....+.+...+.++..+++...+...... -.......|++.+.| .|-.+..+
T Consensus       217 ~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-l~~~~l~~la~~t~G~s~~dl~~l  294 (357)
T 3d8b_A          217 SSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC-LSEEEIEQIVQQSDAFSGADMTQL  294 (357)
T ss_dssp             -CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC-CCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC-ccHHHHHHHHHHcCCCCHHHHHHH
Confidence            11234556667764321 111 1 222467788889999999988776422111 124567888999988 45555554

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.64  E-value=2.4e-07  Score=86.07  Aligned_cols=212  Identities=11%  Similarity=0.092  Sum_probs=112.0

Q ss_pred             CCCccchHHHHHH---HHHHHhcCC--CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe----cCCCChhHHH
Q 038205          121 FSSFETTESACNQ---IIEALKKDS--TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV----SQDPSIINVQ  191 (375)
Q Consensus       121 ~~~~~gr~~~~~~---l~~~l~~~~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~----~~~~~~~~~~  191 (375)
                      +..++|++.....   +...+..+.  .+.+.|+|++|+|||++|+.+.+.......|   +.+..    +........+
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~---~~~~~~~~~~~~~~~~~~~  119 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF---TAIAGSEIFSLEMSKTEAL  119 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE---EEEEGGGGSCSSSCHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc---ccccchhhhhcccchhHHH
Confidence            6789999988766   445555443  3589999999999999999999987632222   11111    1122333333


Q ss_pred             HHHHHHh-CC---------------------------CCCC---CCHHHHHHHHHHHhhh--cCCC----cEEEEEeCCC
Q 038205          192 SELVKSL-GW---------------------------ALTE---KDEEDRADRLRLMFSE--SKSR----KILVILDDVW  234 (375)
Q Consensus       192 ~~i~~~l-~~---------------------------~~~~---~~~~~~~~~l~~~~~~--l~~k----r~LlVlDdv~  234 (375)
                      .+.+... +.                           ....   .........+......  ..++    +.+|+||+++
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~  199 (368)
T 3uk6_A          120 TQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVH  199 (368)
T ss_dssp             HHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGG
T ss_pred             HHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcc
Confidence            3333321 00                           0000   0012222223221111  1122    4699999997


Q ss_pred             Cc--ccccccCCCCCCCCCCcEEEEEeCC-----------------hhHHhhhCCCCcccCCCCChHHHHHHHHHHcCCC
Q 038205          235 KE--LDLETIGIPVGDRDNCCKILLTTRL-----------------QQVCYRMGCDPRIKLDALDQAEGLDLLRKHAGID  295 (375)
Q Consensus       235 ~~--~~~~~l~~~l~~~~~gs~IivTTr~-----------------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~  295 (375)
                      ..  .....+...+..... ..++++|..                 +.+..   ....+.+.+++.++..+++...+...
T Consensus       200 ~l~~~~~~~L~~~le~~~~-~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s---R~~~i~~~~~~~~e~~~il~~~~~~~  275 (368)
T 3uk6_A          200 MLDIESFSFLNRALESDMA-PVLIMATNRGITRIRGTSYQSPHGIPIDLLD---RLLIVSTTPYSEKDTKQILRIRCEEE  275 (368)
T ss_dssp             GSBHHHHHHHHHHTTCTTC-CEEEEEESCSEEECBTSSCEEETTCCHHHHT---TEEEEEECCCCHHHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHhhCcCC-CeeeeecccceeeeeccCCCCcccCCHHHHh---hccEEEecCCCHHHHHHHHHHHHHHc
Confidence            54  222222222222212 234444431                 12222   22457999999999999999876422


Q ss_pred             CCCCCchHHHHHHHHHcC-CchhHHHH-HHHHh-----cC--C-CHHHHHHHHHH
Q 038205          296 VADKTMTDVSKRVADECK-GLPLAIKA-VGSAL-----RL--R-TADEWNVALDK  340 (375)
Q Consensus       296 ~~~~~~~~~~~~i~~~~~-glPlai~~-i~~~L-----~~--~-~~~~w~~~l~~  340 (375)
                      . ..--.+..+.|++.+. |.|-.+.. +....     +.  . +.+..+.++..
T Consensus       276 ~-~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          276 D-VEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             T-CCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             C-CCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            1 1222567788999997 77765433 22221     12  2 56677776664

>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=98.64  E-value=6.7e-07  Score=81.55  Aligned_cols=178  Identities=18%  Similarity=0.188  Sum_probs=101.9

Q ss_pred             CCCCCccchHHHHHHHHHHHh----------c--CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          119 RFFSSFETTESACNQIIEALK----------K--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l~----------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      ..+..++|.+..++.|.+.+.          .  ...+-+.|+|++|+|||+||+.+++....  .|   +.++.+    
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~--~~---~~v~~~----   85 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS--TF---FSVSSS----   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTC--EE---EEEEHH----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCC--CE---EEEchH----
Confidence            345678899999988888761          1  12457999999999999999999987642  12   222211    


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCccc-------------ccccCC---CCCCC
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKELD-------------LETIGI---PVGDR  249 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~~-------------~~~l~~---~l~~~  249 (375)
                        .+    ...    ...    .....+..++. ....++.+|+||+++....             ...+..   .+...
T Consensus        86 --~l----~~~----~~g----~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  151 (322)
T 3eie_A           86 --DL----VSK----WMG----ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  151 (322)
T ss_dssp             --HH----HTT----TGG----GHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS
T ss_pred             --HH----hhc----ccc----hHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc
Confidence              11    100    001    11112222221 3334678999999874311             111111   11122


Q ss_pred             CCCcEEEEEeCChhH-----HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc-hhHHHHH
Q 038205          250 DNCCKILLTTRLQQV-----CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL-PLAIKAV  322 (375)
Q Consensus       250 ~~gs~IivTTr~~~v-----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~i  322 (375)
                      ..+..||.||.....     ..  .....+.+...+.++-.++|..++...... .-......|++.+.|. +-.|..+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~l~~la~~t~g~sg~di~~l  227 (322)
T 3eie_A          152 SQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCV-LTKEDYRTLGAMTEGYSGSDIAVV  227 (322)
T ss_dssp             CCCEEEEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCC-CCHHHHHHHHHTTTTCCHHHHHHH
T ss_pred             CCceEEEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCC-CCHHHHHHHHHHcCCCCHHHHHHH
Confidence            345566667765322     22  223467788899999999999887643211 1245567888888874 4444433

>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=98.60  E-value=2e-06  Score=81.92  Aligned_cols=183  Identities=17%  Similarity=0.183  Sum_probs=102.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHh------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEALK------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      +..+..++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++.... .     .++.++...
T Consensus       130 ~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~-~-----~~~~v~~~~  203 (444)
T 2zan_A          130 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN-S-----TFFSISSSD  203 (444)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS-S-----EEEEECCC-
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC-C-----CEEEEeHHH
Confidence            3445678899998888887762            123578999999999999999999987621 1     123332211


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-------------cccccCCCCCC---C
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-------------DLETIGIPVGD---R  249 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-------------~~~~l~~~l~~---~  249 (375)
                          +....   .+.  ...   .....+..   ....++.+|+||+++...             ....+...+..   .
T Consensus       204 ----l~~~~---~g~--~~~---~~~~~f~~---a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  268 (444)
T 2zan_A          204 ----LVSKW---LGE--SEK---LVKNLFQL---ARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD  268 (444)
T ss_dssp             -----------------CCC---THHHHHHH---HHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCC
T ss_pred             ----HHhhh---cch--HHH---HHHHHHHH---HHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccC
Confidence                11110   110  011   11122222   223578899999997531             01112222221   2


Q ss_pred             CCCcEEEEEeCChhHHh--hh-CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc-hhHHHHH
Q 038205          250 DNCCKILLTTRLQQVCY--RM-GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL-PLAIKAV  322 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~~--~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~i  322 (375)
                      ..+..||.||.......  .. .....+.+...+.++...+|..++....... -......|++.+.|. +-.|..+
T Consensus       269 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          269 NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL-TEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             CSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC-CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHcCCCCHHHHHHH
Confidence            34566777776542211  11 2224677888888999999988875322111 135567889999885 4444443

>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=98.57  E-value=7.7e-07  Score=82.27  Aligned_cols=179  Identities=17%  Similarity=0.171  Sum_probs=100.3

Q ss_pred             CCCCCccchHHHHHHHHHHHhc------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          119 RFFSSFETTESACNQIIEALKK------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      ..+..++|.+..++.|.+.+..            ...+-|.|+|++|+|||+||+.+++....  .|   +.+..+    
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~--~~---~~v~~~----  118 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS--TF---FSVSSS----  118 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC--EE---EEEEHH----
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC--CE---EEeeHH----
Confidence            3456678888888888876521            12356899999999999999999998742  11   222211    


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-------------ccccCCCC---CCCC
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-------------LETIGIPV---GDRD  250 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-------------~~~l~~~l---~~~~  250 (375)
                        .+    ...    ............+..   ....++.+|+||+++....             ...+...+   ....
T Consensus       119 --~l----~~~----~~g~~~~~~~~~f~~---a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          119 --DL----VSK----WMGESEKLVKQLFAM---ARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             --HH----HSC----C---CHHHHHHHHHH---HHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             --HH----hhh----hcchHHHHHHHHHHH---HHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence              11    110    111112222222222   3345789999999874310             11111111   1123


Q ss_pred             CCcEEEEEeCChh-----HHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc-hhHHHHH
Q 038205          251 NCCKILLTTRLQQ-----VCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL-PLAIKAV  322 (375)
Q Consensus       251 ~gs~IivTTr~~~-----v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~i  322 (375)
                      .+..||.||....     +..  .....+.+...+.++-.++|..++....... -......|++.+.|. |-.|..+
T Consensus       186 ~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~-~~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVL-TKEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCC-CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC-CHHHHHHHHHHcCCCCHHHHHHH
Confidence            3456666776442     222  2335678888899999999998875332111 144567889999884 4344433

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.57  E-value=1.4e-06  Score=81.58  Aligned_cols=182  Identities=16%  Similarity=0.087  Sum_probs=100.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEALKK------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      +..+..++|.+..++.|.+++..            ...+.+.|+|++|+|||+||+.+++....     ..+.+..+.-.
T Consensus       111 ~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~  185 (389)
T 3vfd_A          111 AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLT  185 (389)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC-
T ss_pred             CCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhh
Confidence            44567789999999999887621            23468999999999999999999887542     12222222111


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-------------cccccCCCC---CC-
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-------------DLETIGIPV---GD-  248 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-------------~~~~l~~~l---~~-  248 (375)
                      .  .            ............+..   .....+.+|+||+++...             ....+...+   .. 
T Consensus       186 ~--~------------~~g~~~~~~~~~~~~---a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  248 (389)
T 3vfd_A          186 S--K------------YVGEGEKLVRALFAV---ARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSA  248 (389)
T ss_dssp             --------------------CHHHHHHHHHH---HHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC--
T ss_pred             c--c------------ccchHHHHHHHHHHH---HHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhccccc
Confidence            0  0            000111111122222   223456899999996430             000111001   11 


Q ss_pred             CCCCcEEEEEeCChhHH-h-hhC-CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          249 RDNCCKILLTTRLQQVC-Y-RMG-CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~-~-~~~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      ......||.||...... . ... ....+.+...+.++...++...+..... .-.......|++.+.|..- ++..+
T Consensus       249 ~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~-~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          249 GDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS-PLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             ---CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC-CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            12234566666543221 1 111 2246788889999999999888753321 1224567889999988654 55444

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.56  E-value=1.9e-06  Score=77.51  Aligned_cols=180  Identities=17%  Similarity=0.111  Sum_probs=101.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEALKK------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      +..+..++|.+..++.|.+.+..            ...+.+.|+|++|+||||+|+.+++....     ..+.++.+.-.
T Consensus        17 ~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~~i~~~~l~   91 (297)
T 3b9p_A           17 KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFLNISAASLT   91 (297)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEEEEESTTTS
T ss_pred             CCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEeeHHHHh
Confidence            34556788999999988887632            23578999999999999999999987642     12223322211


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc-------------ccccC---CCCCC-
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD-------------LETIG---IPVGD-  248 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~-------------~~~l~---~~l~~-  248 (375)
                      .              .............+..   ....++.+|+||+++....             ...+.   ..++. 
T Consensus        92 ~--------------~~~~~~~~~~~~~~~~---~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  154 (297)
T 3b9p_A           92 S--------------KYVGDGEKLVRALFAV---ARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN  154 (297)
T ss_dssp             S--------------SSCSCHHHHHHHHHHH---HHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC--
T ss_pred             h--------------cccchHHHHHHHHHHH---HHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccccc
Confidence            0              0011111111122222   3345778999999864310             00010   01111 


Q ss_pred             -CCCCcEEEEEeCChh-----HHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHH
Q 038205          249 -RDNCCKILLTTRLQQ-----VCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKA  321 (375)
Q Consensus       249 -~~~gs~IivTTr~~~-----v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~  321 (375)
                       .+.+..||.||....     +...  ....+.+...+.++...++...+.... ..-.......+++.+.|.+- ++..
T Consensus       155 ~~~~~v~vi~~tn~~~~l~~~l~~R--~~~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          155 PDGDRIVVLAATNRPQELDEAALRR--FTKRVYVSLPDEQTRELLLNRLLQKQG-SPLDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             ----CEEEEEEESCGGGBCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHGGGS-CCSCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCCCcEEEEeecCChhhCCHHHHhh--CCeEEEeCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHcCCCCHHHHHH
Confidence             113456666776532     2222  224567777788888888887664221 11124566789999999876 5544


Q ss_pred             H
Q 038205          322 V  322 (375)
Q Consensus       322 i  322 (375)
                      +
T Consensus       232 l  232 (297)
T 3b9p_A          232 L  232 (297)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.55  E-value=2.3e-07  Score=77.07  Aligned_cols=52  Identities=19%  Similarity=0.219  Sum_probs=45.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      |..+..++|++.++..+.+.+.....+.+.|+|++|+|||++|+.+++....
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            4566789999999999999998877778899999999999999999887643

>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=98.49  E-value=1.6e-06  Score=78.32  Aligned_cols=175  Identities=15%  Similarity=0.146  Sum_probs=99.0

Q ss_pred             CCCCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          120 FFSSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      .+..++|.+..++.|.+++..             ...+.+.|+|++|+|||+||+.+++....  .     ++.+.    
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~--~-----~i~v~----   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA--N-----FISIK----   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC--E-----EEEEC----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC--C-----EEEEE----
Confidence            355678888888888776532             34578999999999999999999987642  1     22222    


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCC--C
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVG--D  248 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~  248 (375)
                      ...+....   ++..     .......+..   .....+.+|+||+++...                ....+...+.  .
T Consensus        82 ~~~l~~~~---~g~~-----~~~~~~~f~~---a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~  150 (301)
T 3cf0_A           82 GPELLTMW---FGES-----EANVREIFDK---ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  150 (301)
T ss_dssp             HHHHHHHH---HTTC-----TTHHHHHHHH---HHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC
T ss_pred             hHHHHhhh---cCch-----HHHHHHHHHH---HHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc
Confidence            22222221   1211     1122222333   334568999999997421                0111111111  1


Q ss_pred             CCCCcEEEEEeCChhHHh--hhC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          249 RDNCCKILLTTRLQQVCY--RMG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~--~~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      ...+..||.||.......  ...   ....+.+...+.++-.+++..++.......+.  ....++..+.|.|-+
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~--~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          151 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             TTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHTCSSCCHH
T ss_pred             CCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc--hHHHHHHHcCCCCHH
Confidence            123567777777553321  122   22568899999999999998877532211111  124566677777654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.46  E-value=9.3e-06  Score=75.31  Aligned_cols=198  Identities=20%  Similarity=0.251  Sum_probs=109.7

Q ss_pred             CCCccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          121 FSSFETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      +....|-++.+++|.+.+.             -..++-|.++||+|+|||.||+.+++.....  |   +.+..+.-.  
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~--f---~~v~~s~l~--  219 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK--F---IRVSGAELV--  219 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE--E---EEEEGGGGS--
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC--c---eEEEhHHhh--
Confidence            3455677777777766541             1235678999999999999999999987632  2   233322211  


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc----------c------ccccCCCCC--C
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL----------D------LETIGIPVG--D  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~----------~------~~~l~~~l~--~  248 (375)
                                  .....    +....++.++. +-...+++|++|+++...          .      +..+...+.  .
T Consensus       220 ------------sk~vG----ese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          220 ------------QKYIG----EGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             ------------CSSTT----HHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             ------------ccccc----hHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence                        01111    11222222222 335578999999987431          0      111111111  1


Q ss_pred             CCCCcEEEEEeCChhHH-----hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-HHHH
Q 038205          249 RDNCCKILLTTRLQQVC-----YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-IKAV  322 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i~~i  322 (375)
                      ...+..||.||...+..     ........+.+...+.++-.++|+.+.......++..  ...|++.+.|+--| |..+
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd--l~~lA~~t~G~SGADi~~l  361 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN--LRKVAEKMNGCSGADVKGV  361 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC--HHHHHHHCCSCCHHHHHHH
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC--HHHHHHHCCCCCHHHHHHH
Confidence            23455667777654332     1123346788998899999999988775322222211  35677888876543 2111


Q ss_pred             ---HHH--hcC-C---CHHHHHHHHHHhhh
Q 038205          323 ---GSA--LRL-R---TADEWNVALDKLQN  343 (375)
Q Consensus       323 ---~~~--L~~-~---~~~~w~~~l~~l~~  343 (375)
                         |.+  ++. +   +.+++..++++...
T Consensus       362 ~~eA~~~Air~~~~~vt~~Df~~Al~~v~~  391 (405)
T 4b4t_J          362 CTEAGMYALRERRIHVTQEDFELAVGKVMN  391 (405)
T ss_dssp             HHHHHHHHHHTTCSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcCHHHHHHHHHHHhC
Confidence               222  222 2   56777777766543

>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=98.46  E-value=1.5e-06  Score=79.20  Aligned_cols=174  Identities=16%  Similarity=0.112  Sum_probs=96.5

Q ss_pred             CCCcc-c--hHHHHHHHHHHHhcC--CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          121 FSSFE-T--TESACNQIIEALKKD--STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       121 ~~~~~-g--r~~~~~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      +..|+ |  .......+......+  ....+.|+|++|+||||||+.+++..... .+ .+++++.      ..+...+.
T Consensus        10 f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~-~~~~i~~------~~~~~~~~   81 (324)
T 1l8q_A           10 LENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GY-RVIYSSA------DDFAQAMV   81 (324)
T ss_dssp             SSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TC-CEEEEEH------HHHHHHHH
T ss_pred             cccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CC-EEEEEEH------HHHHHHHH
Confidence            44554 3  334455555555544  35689999999999999999999887543 11 2334432      22333333


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----ccccCCCCCC-CCCCcEEEEEeCCh--------
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----LETIGIPVGD-RDNCCKILLTTRLQ--------  262 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~gs~IivTTr~~--------  262 (375)
                      ..+..    ...    ..+..   .. .+..+|+|||++....    ...+...+.. ...|..+|+||.+.        
T Consensus        82 ~~~~~----~~~----~~~~~---~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~  149 (324)
T 1l8q_A           82 EHLKK----GTI----NEFRN---MY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  149 (324)
T ss_dssp             HHHHH----TCH----HHHHH---HH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHc----CcH----HHHHH---Hh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhh
Confidence            32210    001    11111   22 2366999999965421    1112111110 12355788887642        


Q ss_pred             -hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          263 -QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       263 -~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                       .+...+.....+.+.+ +.++...++...+..... .--.+..+.|++.+ |.+-
T Consensus       150 ~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~-~l~~~~l~~l~~~~-g~~r  202 (324)
T 1l8q_A          150 DRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNL-ELRKEVIDYLLENT-KNVR  202 (324)
T ss_dssp             HHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHC-SSHH
T ss_pred             hHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhC-CCHH
Confidence             2233343345688999 999999999887642111 11245677888888 6654

>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=98.44  E-value=9e-07  Score=91.30  Aligned_cols=157  Identities=13%  Similarity=0.190  Sum_probs=87.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC-----ccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI-----FDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-----f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+.+++||++++..++..+......-+.++|++|+||||+|+.+++.......     -..++.+..+.-..      
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~------  239 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA------  239 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------
T ss_pred             cCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc------
Confidence            5667889999999999999998776667899999999999999999988743210     11223332211100      


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc-------cccc---cCCCCCCCCCCcEEEEEeC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKEL-------DLET---IGIPVGDRDNCCKILLTTR  260 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~-------~~~~---l~~~l~~~~~gs~IivTTr  260 (375)
                            +....    .+....+..++..+  .+++.+|++|+++...       .++.   +...+.  ..+..+|.+|.
T Consensus       240 ------g~~~~----g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at~  307 (854)
T 1qvr_A          240 ------GAKYR----GEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATT  307 (854)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEEC
T ss_pred             ------cCccc----hHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEecC
Confidence                  00000    11112222222222  2468999999997542       1111   111111  12345666555


Q ss_pred             ChhHH-----h-hhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          261 LQQVC-----Y-RMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       261 ~~~v~-----~-~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .....     . .......+.+.+++.++..+++....
T Consensus       308 ~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          308 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             chHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            43321     1 11222458899999999999997543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.42  E-value=1.3e-06  Score=83.77  Aligned_cols=154  Identities=15%  Similarity=0.147  Sum_probs=86.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC---ccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI---FDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+.+++||+.++..+...+......-+.|+|++|+|||++|+.+++.......   ....-++.+.-.          
T Consensus       176 ~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~----------  245 (468)
T 3pxg_A          176 EDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG----------  245 (468)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             cCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC----------
Confidence            5567789999999999999997766667889999999999999999988643210   011111111110          


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh-------h
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY-------R  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~-------~  267 (375)
                       ...    ...........+..   .-..++.+|++|  ...+....+...+.  ....++|.+|.......       .
T Consensus       246 -~~~----~g~~e~~~~~~~~~---~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al  313 (468)
T 3pxg_A          246 -TKY----RGEFEDRLKKVMDE---IRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAAL  313 (468)
T ss_dssp             ------------CTTHHHHHHH---HHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHH
T ss_pred             -ccc----cchHHHHHHHHHHH---HHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHH
Confidence             000    00000112222222   223567899999  22222222333332  22356666665443111       1


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ......+.+.+.+.++...++.....
T Consensus       314 ~~Rf~~i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          314 ERRFQPIQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             HHSEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             HHhCccceeCCCCHHHHHHHHHHHHH
Confidence            12224689999999999999997664

>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=98.38  E-value=1e-06  Score=79.47  Aligned_cols=147  Identities=10%  Similarity=0.018  Sum_probs=87.9

Q ss_pred             hHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCC
Q 038205          127 TESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQDPSIINVQSELVKSLGWALTEK  205 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  205 (375)
                      .++.++.|...+..++.+.+.++|++|+||||+|+.+.+..... .......++..+....-.+..+++.+.+...    
T Consensus         2 ~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~----   77 (305)
T 2gno_A            2 AKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYS----   77 (305)
T ss_dssp             --CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSC----
T ss_pred             hHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhc----
Confidence            45567778888877777789999999999999999998753211 1122233443322111112223333333211    


Q ss_pred             CHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh-hHHhhhCCCCcccCCCCChH
Q 038205          206 DEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ-QVCYRMGCDPRIKLDALDQA  282 (375)
Q Consensus       206 ~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~~~~~~~~~l~~L~~~  282 (375)
                                    ...+++-++|+|+++..  ...+.+...+....+.+.+|++|.+. .+...+... .+++.+++.+
T Consensus        78 --------------p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~  142 (305)
T 2gno_A           78 --------------PELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPK  142 (305)
T ss_dssp             --------------CSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCH
T ss_pred             --------------cccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHH
Confidence                          22346779999998754  23333333333223456777766543 444444444 8999999999


Q ss_pred             HHHHHHHHHc
Q 038205          283 EGLDLLRKHA  292 (375)
Q Consensus       283 e~~~Lf~~~~  292 (375)
                      +....+.+.+
T Consensus       143 ~i~~~L~~~~  152 (305)
T 2gno_A          143 EFRDLVKEKI  152 (305)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998876

>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=98.35  E-value=4.4e-07  Score=75.29  Aligned_cols=42  Identities=26%  Similarity=0.207  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHHHhc---CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          127 TESACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       127 r~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....++.+.+++.+   .....+.|+|++|+|||||++.+++...
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44555555555533   3467899999999999999999999876

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=2.9e-05  Score=73.05  Aligned_cols=198  Identities=15%  Similarity=0.173  Sum_probs=107.3

Q ss_pred             CCccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|-++.+++|.+.+.             -..++-|.++||+|+|||+||+.+++.....  |   +.+..+.-    
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~--f---i~vs~s~L----  279 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT--F---IRVIGSEL----  279 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE--E---EEEEGGGG----
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC--e---EEEEhHHh----
Confidence            456677887777766531             1346789999999999999999999987632  2   23332211    


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----------------ccccCCCCC--CCC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----------------LETIGIPVG--DRD  250 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  250 (375)
                                .......+.......+..   +-...+++|++|+++....                +..+...+.  ...
T Consensus       280 ----------~sk~vGesek~ir~lF~~---Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  346 (467)
T 4b4t_H          280 ----------VQKYVGEGARMVRELFEM---ARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPR  346 (467)
T ss_dssp             ----------CCCSSSHHHHHHHHHHHH---HHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCT
T ss_pred             ----------hcccCCHHHHHHHHHHHH---HHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCC
Confidence                      011111111122222222   4456789999999874310                001111111  123


Q ss_pred             CCcEEEEEeCChhHH-----hhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-HH---H
Q 038205          251 NCCKILLTTRLQQVC-----YRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-IK---A  321 (375)
Q Consensus       251 ~gs~IivTTr~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i~---~  321 (375)
                      .+..||.||...+..     ........+.+...+.++-.++|+.++.......+..  ...|++.|.|+--| |.   .
T Consensus       347 ~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd--l~~LA~~T~GfSGADI~~l~~  424 (467)
T 4b4t_H          347 GNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR--WELISRLCPNSTGAELRSVCT  424 (467)
T ss_dssp             TTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC--HHHHHHHCCSCCHHHHHHHHH
T ss_pred             CcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC--HHHHHHHCCCCCHHHHHHHHH
Confidence            345566677643321     1112346788888899999999988775322222211  35677888876432 11   1


Q ss_pred             HHHH--hc-C--C-CHHHHHHHHHHhhh
Q 038205          322 VGSA--LR-L--R-TADEWNVALDKLQN  343 (375)
Q Consensus       322 i~~~--L~-~--~-~~~~w~~~l~~l~~  343 (375)
                      -|.+  ++ .  . +.+++..+++++..
T Consensus       425 eAa~~Air~~~~~it~~Df~~Al~kV~~  452 (467)
T 4b4t_H          425 EAGMFAIRARRKVATEKDFLKAVDKVIS  452 (467)
T ss_dssp             HHHHHHHHHTCSSBCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCccCHHHHHHHHHHHhc
Confidence            1222  12 2  1 56677777666543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=1.6e-05  Score=74.79  Aligned_cols=199  Identities=18%  Similarity=0.208  Sum_probs=108.1

Q ss_pred             CCCccchHHHHHHHHHHHh----c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          121 FSSFETTESACNQIIEALK----K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      +....|-++.++.|.+.+.    .         ..++-|.++||+|+|||+||+.+++.....  |   +.+..+.-.+ 
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~--~---~~v~~s~l~s-  253 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN--F---IFSPASGIVD-  253 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE--E---EEEEGGGTCC-
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEehhhhcc-
Confidence            3455677777777766541    1         236789999999999999999999987632  2   2333322110 


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----------------ccccCCCCC--CC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----------------LETIGIPVG--DR  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----------------~~~l~~~l~--~~  249 (375)
                                   .....+.......+..   +-...+++|++|+++....                +..+...+.  ..
T Consensus       254 -------------k~~Gese~~ir~~F~~---A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  317 (437)
T 4b4t_L          254 -------------KYIGESARIIREMFAY---AKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDN  317 (437)
T ss_dssp             -------------SSSSHHHHHHHHHHHH---HHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSC
T ss_pred             -------------ccchHHHHHHHHHHHH---HHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccC
Confidence                         1111111111222222   3445899999999874210                111111111  12


Q ss_pred             CCCcEEEEEeCChhHHhh--hC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-HHHH-
Q 038205          250 DNCCKILLTTRLQQVCYR--MG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-IKAV-  322 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~~~--~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i~~i-  322 (375)
                      ..+..||.||...+..+.  ..   ....+.+...+.++-.++|+.++.......+..  ...|++.+.|+--| |..+ 
T Consensus       318 ~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d--l~~lA~~t~G~sGADi~~l~  395 (437)
T 4b4t_L          318 LGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD--FEAAVKMSDGFNGADIRNCA  395 (437)
T ss_dssp             TTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC--HHHHHHTCCSCCHHHHHHHH
T ss_pred             CCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC--HHHHHHhCCCCCHHHHHHHH
Confidence            345567777776543221  12   235688888888888888887764222111111  35677788776433 2211 


Q ss_pred             --HHH--hc-CC---CHHHHHHHHHHhhh
Q 038205          323 --GSA--LR-LR---TADEWNVALDKLQN  343 (375)
Q Consensus       323 --~~~--L~-~~---~~~~w~~~l~~l~~  343 (375)
                        |.+  ++ .+   +.++...++++...
T Consensus       396 ~eA~~~air~~~~~i~~~d~~~Al~~v~~  424 (437)
T 4b4t_L          396 TEAGFFAIRDDRDHINPDDLMKAVRKVAE  424 (437)
T ss_dssp             HHHHHHHHHTTCSSBCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHHHh
Confidence              222  22 21   56677777766554

>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=98.31  E-value=1.8e-05  Score=72.48  Aligned_cols=216  Identities=19%  Similarity=0.216  Sum_probs=114.2

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++|.+..++.+...+..     .....+.|+|++|+||||||+.+++.....  |.   ..+ .....      
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~--~~---~~s-g~~~~------   88 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN--IH---VTS-GPVLV------   88 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC--EE---EEE-TTTCC------
T ss_pred             CccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--EE---EEe-chHhc------
Confidence            55677788888888777766643     234689999999999999999999987421  11   111 11000      


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCC---CCC------CC---------CCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGI---PVG------DR---------DNC  252 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~---~l~------~~---------~~g  252 (375)
                                   ...+....+.    .+. ++.++++|++....  ..+.+..   ...      ..         -+.
T Consensus        89 -------------~~~~l~~~~~----~~~-~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~  150 (334)
T 1in4_A           89 -------------KQGDMAAILT----SLE-RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP  150 (334)
T ss_dssp             -------------SHHHHHHHHH----HCC-TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CC
T ss_pred             -------------CHHHHHHHHH----Hcc-CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCC
Confidence                         0111111111    222 34477788775421  1111100   000      00         011


Q ss_pred             cEEE-EEeCChhHHhhhCC--CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHH----
Q 038205          253 CKIL-LTTRLQQVCYRMGC--DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSA----  325 (375)
Q Consensus       253 s~Ii-vTTr~~~v~~~~~~--~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~----  325 (375)
                      ..++ .|++...+......  .....+++.+.++..+++.+.+.... ..-..+.+..|++.++|.|-.+..+-..    
T Consensus       151 ~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~-~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~  229 (334)
T 1in4_A          151 FTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDM  229 (334)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             eEEEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            2233 34443332211111  13578999999999999998763211 1222567899999999999755433221    


Q ss_pred             --hc-C-C-CHHHHHHHHHHhhhcccCCCCCCCCCchhhhhhhhhhcc
Q 038205          326 --LR-L-R-TADEWNVALDKLQNAKLDKIEGIDKDSRGVYGCLKFSYD  368 (375)
Q Consensus       326 --L~-~-~-~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~  368 (375)
                        +. . . +.+.-+.+++.+...    ....+.....++.++.-+|.
T Consensus       230 a~~~~~~~It~~~v~~al~~~~~~----~~~l~~~~~~~l~~~~~~~~  273 (334)
T 1in4_A          230 LTVVKADRINTDIVLKTMEVLNID----DEGLDEFDRKILKTIIEIYR  273 (334)
T ss_dssp             HHHHTCSSBCHHHHHHHHHHHTCC----TTCCCHHHHHHHHHHHHHST
T ss_pred             HHHcCCCCcCHHHHHHHHHHhCCC----cCCCCHHHHHHHHHHHHHhC
Confidence              11 1 2 666777777765421    11222222345555555553

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.29  E-value=7.9e-05  Score=65.30  Aligned_cols=178  Identities=15%  Similarity=0.152  Sum_probs=93.7

Q ss_pred             CCCCCccchHHHHHHHHHHH---hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          119 RFFSSFETTESACNQIIEAL---KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       119 ~~~~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      ..+..++|.+..++.+.+.+   ..         ...+-+.|+|++|+||||||+.+++....  .|   +.+..+.-.+
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~--~~---~~i~~~~~~~   83 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV--PF---FTISGSDFVE   83 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC--CE---EEECSCSSTT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC--CE---EEEeHHHHHH
Confidence            44566788887776665543   22         12456899999999999999999987642  12   2222211100


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCC--C
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVG--D  248 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~  248 (375)
                                    .............+..   .....+.++++|+++...                ....+...+.  .
T Consensus        84 --------------~~~~~~~~~~~~~~~~---a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (257)
T 1lv7_A           84 --------------MFVGVGASRVRDMFEQ---AKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE  146 (257)
T ss_dssp             --------------SCCCCCHHHHHHHHHH---HHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC
T ss_pred             --------------HhhhhhHHHHHHHHHH---HHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcc
Confidence                          0011122223333333   344567899999984210                0011111111  1


Q ss_pred             CCCCcEEEEEeCChhHH-hh-hC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCC-chhHHH
Q 038205          249 RDNCCKILLTTRLQQVC-YR-MG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKG-LPLAIK  320 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~-~~-~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPlai~  320 (375)
                      ...+..||.||...... .. ..   ....+.+...+.++-.+++..++......++.  ....++..+.| .+--|.
T Consensus       147 ~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~--~~~~la~~~~G~~~~dl~  222 (257)
T 1lv7_A          147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSGADLA  222 (257)
T ss_dssp             SSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHHHHH
T ss_pred             cCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccc--cHHHHHHHcCCCCHHHHH
Confidence            12345677777654321 11 11   12456777888888888888776422111211  13456777777 555443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.29  E-value=5.2e-06  Score=84.59  Aligned_cols=154  Identities=16%  Similarity=0.154  Sum_probs=87.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC---CccEEEEEEecCCCChhHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN---IFDKVGIATVSQDPSIINVQSEL  194 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f~~~~wv~~~~~~~~~~~~~~i  194 (375)
                      |..+.+++|++++++.+...+......-+.++|++|+|||++|+.+.+......   .....-++.+.-           
T Consensus       176 ~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-----------  244 (758)
T 3pxi_A          176 EDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-----------  244 (758)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             hCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-----------
Confidence            456678999999999999999877667789999999999999999998863211   000111111111           


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh-------h
Q 038205          195 VKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY-------R  267 (375)
Q Consensus       195 ~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~-------~  267 (375)
                          +..............+..   ....++.+|++|  ...+....+...+.  ....++|.||.......       .
T Consensus       245 ----g~~~~G~~e~~l~~~~~~---~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al  313 (758)
T 3pxi_A          245 ----GTKYRGEFEDRLKKVMDE---IRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAAL  313 (758)
T ss_dssp             ------------CTTHHHHHHH---HHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHH
T ss_pred             ----cccccchHHHHHHHHHHH---HHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHH
Confidence                000001111122223333   333578899999  22222222322332  22456666665443111       1


Q ss_pred             hCCCCcccCCCCChHHHHHHHHHHcC
Q 038205          268 MGCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       268 ~~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ......+.+...+.++..+++.....
T Consensus       314 ~rRf~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          314 ERRFQPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             HHSEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             HhhCcEEEeCCCCHHHHHHHHHHHHH
Confidence            11225689999999999999997654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.27  E-value=2.3e-05  Score=72.97  Aligned_cols=199  Identities=22%  Similarity=0.211  Sum_probs=107.3

Q ss_pred             CCCccchHHHHHHHHHHH----hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          121 FSSFETTESACNQIIEAL----KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l----~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      +....|-++.++.|.+.+    ..         ..++-|.++||+|+|||.||+.+++.....  |   +.+..+.-   
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~--f---i~v~~s~l---  252 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT--F---LRIVGSEL---  252 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE--E---EEEESGGG---
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC--E---EEEEHHHh---
Confidence            344567777777776654    11         236789999999999999999999987632  2   22222211   


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCccc----------------ccccCCCC--CC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKELD----------------LETIGIPV--GD  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~~----------------~~~l~~~l--~~  248 (375)
                                 ......    +....++.++. +-...+++|++|+++....                +..+...+  ..
T Consensus       253 -----------~sk~vG----esek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~  317 (437)
T 4b4t_I          253 -----------IQKYLG----DGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD  317 (437)
T ss_dssp             -----------CCSSSS----HHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCC
T ss_pred             -----------hhccCc----hHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcC
Confidence                       011111    11122222222 3345789999998864210                11111111  11


Q ss_pred             CCCCcEEEEEeCChhHHhh--hC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH-HHHH
Q 038205          249 RDNCCKILLTTRLQQVCYR--MG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA-IKAV  322 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~~--~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i~~i  322 (375)
                      ...+..||.||...+..+.  ..   ....+.+...+.++-.++|+.++......++.  ....|++.+.|+--| |..+
T Consensus       318 ~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv--dl~~LA~~T~GfSGADI~~l  395 (437)
T 4b4t_I          318 DRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV--NLETLVTTKDDLSGADIQAM  395 (437)
T ss_dssp             CSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC--CHHHHHHHCCSCCHHHHHHH
T ss_pred             CCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCCCHHHHHHH
Confidence            2344567777765544221  11   12567888888888899998877532222221  135677778776432 1111


Q ss_pred             ---HHH--hcC-C---CHHHHHHHHHHhhhc
Q 038205          323 ---GSA--LRL-R---TADEWNVALDKLQNA  344 (375)
Q Consensus       323 ---~~~--L~~-~---~~~~w~~~l~~l~~~  344 (375)
                         |.+  ++. +   +.+++..++++...+
T Consensus       396 ~~eA~~~Air~~~~~It~eDf~~Al~rv~~~  426 (437)
T 4b4t_I          396 CTEAGLLALRERRMQVTAEDFKQAKERVMKN  426 (437)
T ss_dssp             HHHHHHHHHHTTCSCBCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCccCHHHHHHHHHHHhCC
Confidence               211  222 1   567777777765543

>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=98.26  E-value=1.1e-05  Score=82.28  Aligned_cols=157  Identities=14%  Similarity=0.179  Sum_probs=92.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEE-EecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIA-TVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv-~~~~~~~~~~~~~  192 (375)
                      |..+.+++||+.++..+.+.+......-+.|+|++|+|||++|+.+.+......    .....++. ..+.      +. 
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~------l~-  254 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS------LL-  254 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----------
T ss_pred             cCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHH------Hh-
Confidence            556778999999999999999877777889999999999999999998764321    11222222 1110      00 


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcc--------c---ccccCCCCCCCCCCcEEEEEeC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKEL--------D---LETIGIPVGDRDNCCKILLTTR  260 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~--------~---~~~l~~~l~~~~~gs~IivTTr  260 (375)
                           .+.....    .....+..++..+ ..++.+|++||++...        .   ...+...+.  .....+|.+|.
T Consensus       255 -----~~~~~~g----~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~  323 (758)
T 1r6b_X          255 -----AGTKYRG----DFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTT  323 (758)
T ss_dssp             -----CCCCCSS----CHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEEC
T ss_pred             -----ccccccc----hHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeC
Confidence                 0000111    1112222222233 3367899999997541        1   112322232  23456666666


Q ss_pred             ChhHHhhh-------CCCCcccCCCCChHHHHHHHHHHc
Q 038205          261 LQQVCYRM-------GCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       261 ~~~v~~~~-------~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ........       .....+.+...+.++..+++....
T Consensus       324 ~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          324 YQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             chHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            54332111       111358899999999988887654

>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=98.22  E-value=2.9e-05  Score=74.62  Aligned_cols=179  Identities=16%  Similarity=0.174  Sum_probs=98.7

Q ss_pred             CCCCccchHHHHHHHHHHHh-------------cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          120 FFSSFETTESACNQIIEALK-------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      .+..++|.+..+++|.+++.             .....-+.|+|++|+|||++|+.+.+...  ..   .+.++.+    
T Consensus       202 ~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~--~~---fv~vn~~----  272 (489)
T 3hu3_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AF---FFLINGP----  272 (489)
T ss_dssp             CGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS--SE---EEEEEHH----
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC--CC---EEEEEch----
Confidence            34567888988888887763             23456799999999999999999988753  11   2223211    


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-------------cccccCCCCC--CCCC
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-------------DLETIGIPVG--DRDN  251 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-------------~~~~l~~~l~--~~~~  251 (375)
                            .+...    ............+..   ...+++.+|+||+++...             ....+...+.  ....
T Consensus       273 ------~l~~~----~~g~~~~~~~~~f~~---A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~  339 (489)
T 3hu3_A          273 ------EIMSK----LAGESESNLRKAFEE---AEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (489)
T ss_dssp             ------HHHTS----CTTHHHHHHHHHHHH---HHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTS
T ss_pred             ------Hhhhh----hcchhHHHHHHHHHH---HHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCC
Confidence                  11110    011111122222333   445678899999984210             0111111111  1223


Q ss_pred             CcEEEEEeCChhH-Hhhh----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc-hhHHHHH
Q 038205          252 CCKILLTTRLQQV-CYRM----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL-PLAIKAV  322 (375)
Q Consensus       252 gs~IivTTr~~~v-~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~i  322 (375)
                      +..||.||..... ...+    .....+.+...+.++-.++|..++.......+  .....++..+.|. +-.+..+
T Consensus       340 ~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~--~~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             CEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT--CCHHHHHHTCTTCCHHHHHHH
T ss_pred             ceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch--hhHHHHHHHccCCcHHHHHHH
Confidence            4566667765422 1111    22246889999999999999988753221111  1135566777775 4444433

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.21  E-value=8.6e-06  Score=76.57  Aligned_cols=172  Identities=17%  Similarity=0.202  Sum_probs=94.8

Q ss_pred             CCCCccchHHHHHHHHHHH----hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC
Q 038205          120 FFSSFETTESACNQIIEAL----KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS  186 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l----~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  186 (375)
                      .+....|-++.++.|.+.+    ..         ..++-|.++||+|+|||.||+.+++.....  |   +.+..+.-  
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~--f---~~v~~s~l--  251 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT--F---LKLAAPQL--  251 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE--E---EEEEGGGG--
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC--E---EEEehhhh--
Confidence            3456678888888877653    11         236789999999999999999999987632  2   22332211  


Q ss_pred             hhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc-------c---------cccccCCCCCC-
Q 038205          187 IINVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE-------L---------DLETIGIPVGD-  248 (375)
Q Consensus       187 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~-------~---------~~~~l~~~l~~-  248 (375)
                                  ......    +....++.++. +-...+++|++|+++..       .         .+..+...+.. 
T Consensus       252 ------------~~~~vG----ese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~  315 (434)
T 4b4t_M          252 ------------VQMYIG----EGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF  315 (434)
T ss_dssp             ------------CSSCSS----HHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTS
T ss_pred             ------------hhcccc----hHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhcc
Confidence                        001111    11122222222 33347899999998631       0         01111111111 


Q ss_pred             -CCCCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          249 -RDNCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       249 -~~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                       ...+..||.||...+..+.  .   .....+.+...+.++-.++|+.++......++..  ...|++.+.|+-
T Consensus       316 ~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd--l~~lA~~t~G~s  387 (434)
T 4b4t_M          316 SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN--WQELARSTDEFN  387 (434)
T ss_dssp             CSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC--HHHHHHHCSSCC
T ss_pred             CCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC--HHHHHHhCCCCC
Confidence             2234566667765443221  1   1235688888888888888886653211111111  356777887754

>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=98.17  E-value=1.2e-05  Score=76.71  Aligned_cols=173  Identities=18%  Similarity=0.180  Sum_probs=94.9

Q ss_pred             CCCCccchHHHHHHHHHHH---hcC---------CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEAL---KKD---------STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l---~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..+.|.++.++++.+..   ...         -++-+.|+|++|+|||+||+.+++....  .|   +.++.+.-...
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~--~f---~~is~~~~~~~   88 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV--PF---FHISGSDFVEL   88 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC--CE---EEEEGGGTTTC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC--Ce---eeCCHHHHHHH
Confidence            3456778877766665543   221         2356889999999999999999987642  12   22332221110


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc----------------cccccCCCCC--CC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL----------------DLETIGIPVG--DR  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~  249 (375)
                                    ............+..   .....+.+|+||+++...                .+..+...+.  ..
T Consensus        89 --------------~~g~~~~~~r~lf~~---A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~  151 (476)
T 2ce7_A           89 --------------FVGVGAARVRDLFAQ---AKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS  151 (476)
T ss_dssp             --------------CTTHHHHHHHHHHHH---HHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG
T ss_pred             --------------HhcccHHHHHHHHHH---HHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC
Confidence                          000011122222333   445678999999985421                1111111111  11


Q ss_pred             CCCcEEEEEeCChhHHh--hhC---CCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          250 DNCCKILLTTRLQQVCY--RMG---CDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~~--~~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                      ..+..||.||...+...  ...   ....+.+...+.++-.++++.++......++..  ...+++.+.|..
T Consensus       152 ~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~--l~~la~~t~G~s  221 (476)
T 2ce7_A          152 KEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN--LEIIAKRTPGFV  221 (476)
T ss_dssp             GGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC--HHHHHHTCTTCC
T ss_pred             CCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh--HHHHHHhcCCCc
Confidence            23567777777654422  122   224678888888888888887765322122211  345778888876

>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=98.16  E-value=2.7e-06  Score=75.29  Aligned_cols=174  Identities=21%  Similarity=0.208  Sum_probs=88.2

Q ss_pred             CCCCccchHHHHHHHHHHHh---c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEALK---K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..++|.+..++.+.+.+.   .         ...+-+.|+|++|+|||+||+.+++.....  |-     .+... +.
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~~-----~v~~~-~~   80 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP--FF-----SMGGS-SF   80 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC--CC-----CCCSC-TT
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--EE-----EechH-HH
Confidence            34567777666666655442   1         123457899999999999999999876531  21     11110 00


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----------------cccccCCCCCC--
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----------------DLETIGIPVGD--  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----------------~~~~l~~~l~~--  248 (375)
                      ..       .+. ......   ....+..   ....++.+|+|||++...                 .+..+...+..  
T Consensus        81 ~~-------~~~-~~~~~~---~~~~~~~---a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (268)
T 2r62_A           81 IE-------MFV-GLGASR---VRDLFET---AKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG  146 (268)
T ss_dssp             TT-------SCS-SSCSSS---SSTTHHH---HHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS
T ss_pred             HH-------hhc-chHHHH---HHHHHHH---HHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc
Confidence            00       000 000000   1111111   222356899999985421                 12222222221  


Q ss_pred             -CCCCcEEEEEeCChhHHh--hh---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          249 -RDNCCKILLTTRLQQVCY--RM---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       249 -~~~gs~IivTTr~~~v~~--~~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                       ......||.||.......  ..   .....+.+...+.++-.+++...+.......+.  ....|++.+.|.|-
T Consensus       147 ~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~g~~g  219 (268)
T 2r62_A          147 SENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDV--NLQEVAKLTAGLAG  219 (268)
T ss_dssp             CSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSC--CTTTTTSSSCSSCH
T ss_pred             cCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCcc--CHHHHHHHcCCCCH
Confidence             112345666776543211  11   123568888999999999998876422111110  01335556777654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=4e-05  Score=71.97  Aligned_cols=171  Identities=18%  Similarity=0.171  Sum_probs=89.7

Q ss_pred             CCCccchHHHHHHHHHHHh----c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          121 FSSFETTESACNQIIEALK----K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      +....|-++.++.|.+.+.    .         ..++-|.++||+|+|||+||+.+++.....  |   +.+..+.-.+ 
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~--~---~~v~~~~l~~-  244 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA--F---IRVNGSEFVH-  244 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE--E---EEEEGGGTCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC--e---EEEecchhhc-
Confidence            3456677887777766542    1         235679999999999999999999987632  2   2333332110 


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc----------------cccccCCCCC--C
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL----------------DLETIGIPVG--D  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~  248 (375)
                                   ....    +....++.++. +-...++++++|+++...                .+..+...+.  .
T Consensus       245 -------------~~~G----e~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~  307 (428)
T 4b4t_K          245 -------------KYLG----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD  307 (428)
T ss_dssp             -------------SSCS----HHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC
T ss_pred             -------------cccc----hhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC
Confidence                         1111    11122222222 334578999999985210                0111111111  1


Q ss_pred             CCCCcEEEEEeCChhHHh--hhC---CCCcccCCCCC-hHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          249 RDNCCKILLTTRLQQVCY--RMG---CDPRIKLDALD-QAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~~--~~~---~~~~~~l~~L~-~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                      ...+..||.||...+..+  ...   ....+.+..++ .++-..+|+.++......++.  -...|++.+.|+-
T Consensus       308 ~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~--dl~~lA~~t~G~s  379 (428)
T 4b4t_K          308 QSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA--DLDSLIIRNDSLS  379 (428)
T ss_dssp             SSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC--CHHHHHHHTTTCC
T ss_pred             CCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHHCCCCC
Confidence            234556777776543211  112   22467776554 455556666655322111111  1356777787754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.02  E-value=2e-05  Score=66.43  Aligned_cols=60  Identities=27%  Similarity=0.170  Sum_probs=40.0

Q ss_pred             CCCCccch----HHHHHHHHHHHhcCC----CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          120 FFSSFETT----ESACNQIIEALKKDS----TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       120 ~~~~~~gr----~~~~~~l~~~l~~~~----~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      .+..|++.    ...++.+..++....    ...+.|+|++|+|||+||+.+++.....  ...+++++.
T Consensus        23 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~   90 (202)
T 2w58_A           23 SLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYV   90 (202)
T ss_dssp             CTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEH
T ss_pred             CHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEh
Confidence            44555543    345566666665431    2789999999999999999999887643  233455543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.00  E-value=5.7e-06  Score=65.96  Aligned_cols=46  Identities=24%  Similarity=0.240  Sum_probs=35.1

Q ss_pred             CccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+...+.++.+.+..  ....-|.|+|++|+|||++|+.+++...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC
Confidence            356788888888877642  3445678999999999999999988653

>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=97.98  E-value=4.7e-05  Score=68.51  Aligned_cols=46  Identities=24%  Similarity=0.265  Sum_probs=37.0

Q ss_pred             CccchHHHHHHHHHHHhc--------------CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK--------------DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+++.++.+...+..              .....+.|+|++|+|||++|+.+.+...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            357888888888877643              2356788999999999999999998774

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.96  E-value=1.8e-05  Score=71.43  Aligned_cols=46  Identities=26%  Similarity=0.329  Sum_probs=36.3

Q ss_pred             CccchHHHHHHHHHHHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+.+...
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc
Confidence            3568888888887776432         134799999999999999999998765

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.95  E-value=9.6e-06  Score=64.99  Aligned_cols=28  Identities=21%  Similarity=0.233  Sum_probs=25.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+.|+|++|+|||||++.+++....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5678999999999999999999998764

>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=97.88  E-value=1.6e-05  Score=70.10  Aligned_cols=48  Identities=17%  Similarity=0.144  Sum_probs=34.3

Q ss_pred             CCCccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          121 FSSFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..++|....+..+.+.+..  .....+.|+|++|+|||++|+.+.+...
T Consensus         5 f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            5 KDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             -----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             cccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            45677888888887766532  3346788999999999999999988754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.81  E-value=0.00014  Score=65.11  Aligned_cols=27  Identities=22%  Similarity=0.361  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+..+.++||+|+|||+||+.+++...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356889999999999999999999874

>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=97.80  E-value=0.00027  Score=68.91  Aligned_cols=45  Identities=33%  Similarity=0.401  Sum_probs=33.1

Q ss_pred             ccchHHHHHHHHHHHh------cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALK------KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++....+.+.+.      ......+.++|++|+||||||+.+.....
T Consensus        83 i~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A           83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             hccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4566666655544431      12467899999999999999999998874

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.79  E-value=6.2e-06  Score=65.60  Aligned_cols=46  Identities=17%  Similarity=0.139  Sum_probs=33.5

Q ss_pred             CccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+...+.++.+.+..  ....-|.|+|++|+|||++|+.+.+...
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            456777888777777642  3445688999999999999999887543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.79  E-value=3e-05  Score=69.95  Aligned_cols=46  Identities=20%  Similarity=0.266  Sum_probs=36.1

Q ss_pred             CccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+...+.++.+.+..  .....|.|+|++|+|||++|+.+.+...
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~   50 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA   50 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc
Confidence            356777888888777643  3456788999999999999999988653

>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=97.72  E-value=9.1e-05  Score=74.87  Aligned_cols=172  Identities=16%  Similarity=0.190  Sum_probs=92.4

Q ss_pred             CccchHHHHHHHHHHH----hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhH
Q 038205          123 SFETTESACNQIIEAL----KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l----~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  189 (375)
                      ...|-++.+++|.+.+    ..         ..++-|.++||+|+|||+||+.+++.....     .+.+..+       
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~-------  272 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGP-------  272 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHH-------
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhH-------
Confidence            3455666555555543    22         135689999999999999999999877531     2233221       


Q ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--------c-----ccccCCCCC--CCCCCcE
Q 038205          190 VQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--------D-----LETIGIPVG--DRDNCCK  254 (375)
Q Consensus       190 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--------~-----~~~l~~~l~--~~~~gs~  254 (375)
                         ++..    .....+...+...+..   +....+++|+||+++...        .     ...+...+.  ....+..
T Consensus       273 ---~l~s----k~~gese~~lr~lF~~---A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~  342 (806)
T 3cf2_A          273 ---EIMS----KLAGESESNLRKAFEE---AEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (806)
T ss_dssp             ---HHHS----SCTTHHHHHHHHHHHH---HTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEE
T ss_pred             ---Hhhc----ccchHHHHHHHHHHHH---HHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEE
Confidence               1110    1111111222223333   556689999999986421        0     011111110  1122345


Q ss_pred             EEEEeCChhHH-hhh----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          255 ILLTTRLQQVC-YRM----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       255 IivTTr~~~v~-~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      ||.||...+.. ..+    .....+.+...+.++-.++|+.+........+.  ....|++.+.|+--|
T Consensus       343 VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dv--dl~~lA~~T~Gfsga  409 (806)
T 3cf2_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHVGA  409 (806)
T ss_dssp             EEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTC--CHHHHHHHCCSCCHH
T ss_pred             EEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHhcCCCCHH
Confidence            55566543321 111    223568888889999999998876532211111  135677888877543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.72  E-value=0.00023  Score=72.40  Aligned_cols=145  Identities=15%  Similarity=0.179  Sum_probs=78.2

Q ss_pred             CccchHHHHHHHHHHHhcC-------C--CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHH
Q 038205          123 SFETTESACNQIIEALKKD-------S--TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSE  193 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~-------~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  193 (375)
                      .++|.+..+..+...+...       .  ...+.++|++|+|||++|+.+.+.....  -...+.+..+.-.+..     
T Consensus       492 ~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~~~~~~-----  564 (758)
T 3pxi_A          492 RVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSEYMEKH-----  564 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGGGCSSC-----
T ss_pred             cCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechhccccc-----
Confidence            4678888888888776421       1  1269999999999999999999886321  1223344433211100     


Q ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCC-----CCC------CCCCcEEEEEeC
Q 038205          194 LVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIP-----VGD------RDNCCKILLTTR  260 (375)
Q Consensus       194 i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~-----l~~------~~~gs~IivTTr  260 (375)
                               ... .......++.      ....+|+||++....  ....+...     +..      ......||+||.
T Consensus       565 ---------~~~-~~~l~~~~~~------~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          565 ---------STS-GGQLTEKVRR------KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             ---------CCC----CHHHHHH------CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             ---------ccc-cchhhHHHHh------CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence                     000 0111111221      233489999997531  11111110     100      123468888887


Q ss_pred             C-----------------hhHHhhhCCCCcccCCCCChHHHHHHHHHHc
Q 038205          261 L-----------------QQVCYRMGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       261 ~-----------------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .                 +.+...+  ..++.+.+++.++...++...+
T Consensus       629 ~~~~~~~~~~~~~~~~f~p~l~~Rl--~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          629 VGASEKDKVMGELKRAFRPEFINRI--DEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             SSTTCCHHHHHHHHHHSCHHHHTTS--SEEEECC--CHHHHHHHHHHHH
T ss_pred             CChhhHHHHHHHHHhhCCHHHHhhC--CeEEecCCCCHHHHHHHHHHHH
Confidence            3                 1111222  2478899999999988887654

>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=97.69  E-value=0.00011  Score=70.10  Aligned_cols=48  Identities=29%  Similarity=0.282  Sum_probs=36.7

Q ss_pred             CCCccchHHHHHHHHHH---HhcC--CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          121 FSSFETTESACNQIIEA---LKKD--STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~---l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..++|.++.++.+..+   +..+  ..+-+.++||+|+|||++|+.+++...
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            46788988887765544   3333  245799999999999999999988765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.68  E-value=0.0009  Score=59.17  Aligned_cols=150  Identities=17%  Similarity=0.141  Sum_probs=80.5

Q ss_pred             CCCccchHHHHHHHHHHHh----c---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          121 FSSFETTESACNQIIEALK----K---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      +....|-++..+.|.+.+.    .         .-.+-+.|+|++|+|||||++.++.....     ..+.+....-.+ 
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~-   82 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLN-   82 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHh-
Confidence            3456677777766665431    1         11233999999999999999999987653     233333221110 


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcccc-------------cccCCCCCC--CCC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKELDL-------------ETIGIPVGD--RDN  251 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~~~-------------~~l~~~l~~--~~~  251 (375)
                                       ....+....+..+++.. ...++++++|+++.....             ..+...+..  ...
T Consensus        83 -----------------~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~  145 (274)
T 2x8a_A           83 -----------------MYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQ  145 (274)
T ss_dssp             -----------------STTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTT
T ss_pred             -----------------hhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccC
Confidence                             00111122233333232 346789999998642100             000001111  122


Q ss_pred             CcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcC
Q 038205          252 CCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       252 gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~  293 (375)
                      ..-++.+|....+.+.  .   .-...+.+...+.++-.++|+.+..
T Consensus       146 ~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          146 QVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             CEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             CEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            3445566766554322  1   2335678888899999999988764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.63  E-value=0.00037  Score=66.88  Aligned_cols=174  Identities=24%  Similarity=0.217  Sum_probs=93.3

Q ss_pred             CCCCCCccchHHHHHHHHHH---HhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          118 PRFFSSFETTESACNQIIEA---LKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~---l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      +..+..+.|.++.+.++.+.   +...         -.+-+.|+|++|+||||||+.+++....     ..+.++.+.-.
T Consensus        27 ~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~-----~~i~i~g~~~~  101 (499)
T 2dhr_A           27 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFV  101 (499)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----CEEEEEGGGGT
T ss_pred             CCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEehhHHH
Confidence            34456778888776666554   3221         1335899999999999999999987652     12333322110


Q ss_pred             ChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC-CCcEEEEEeCCCCcc----------------cccccCCCCCC
Q 038205          186 SIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK-SRKILVILDDVWKEL----------------DLETIGIPVGD  248 (375)
Q Consensus       186 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~-~kr~LlVlDdv~~~~----------------~~~~l~~~l~~  248 (375)
                      +                  .........+..+++... ..+.++++|+++...                .+..+...+..
T Consensus       102 ~------------------~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg  163 (499)
T 2dhr_A          102 E------------------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG  163 (499)
T ss_dssp             S------------------SCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGG
T ss_pred             H------------------hhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcc
Confidence            0                  000112223444333332 356899999985321                01111111111


Q ss_pred             --CCCCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          249 --RDNCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       249 --~~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                        ...+..++.||........  .   .....+.+...+.++-.++++.++......++  .....|+..+.|+.
T Consensus       164 ~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~d--v~l~~lA~~t~G~~  236 (499)
T 2dhr_A          164 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFV  236 (499)
T ss_dssp             CCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCS--STTHHHHTTSCSCC
T ss_pred             cccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChH--HHHHHHHHhcCCCC
Confidence              1233456666666554221  1   22356788888888888888876642211111  11345677777765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.62  E-value=0.00015  Score=62.20  Aligned_cols=116  Identities=16%  Similarity=0.149  Sum_probs=60.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------------------
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------------------  203 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------------------  203 (375)
                      ...+++|+|++|+|||||++.+.......+  ..+.|+....  ....+...+ ..++....                  
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~--~~v~~~~~~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRDG--DPCIYVTTEE--SRDSIIRQA-KQFNWDFEEYIEKKLIIIDALMKEKE   96 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHHT--CCEEEEESSS--CHHHHHHHH-HHTTCCCGGGBTTTEEEEECCC----
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHCC--CeEEEEEccc--CHHHHHHHH-HHhcchHHHHhhCCEEEEeccccccC
Confidence            457999999999999999999987654321  2345554332  333333332 23332111                  


Q ss_pred             ------CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----cccccCCCCCC--CCCCcEEEEEeCCh
Q 038205          204 ------EKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----DLETIGIPVGD--RDNCCKILLTTRLQ  262 (375)
Q Consensus       204 ------~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----~~~~l~~~l~~--~~~gs~IivTTr~~  262 (375)
                            ..+..+....+.........+..+||+|.+....     ....+...+..  ...|..||++|+..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           97 DQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             ceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                  1133344444444222223334599999876321     11111111111  12468899999875

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.58  E-value=0.00045  Score=59.39  Aligned_cols=28  Identities=25%  Similarity=0.466  Sum_probs=24.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.+......
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   60 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGELEP   60 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            4679999999999999999999887653

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.56  E-value=0.00043  Score=59.86  Aligned_cols=28  Identities=21%  Similarity=0.329  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3467999999999999999999988765

>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=97.55  E-value=0.0014  Score=57.02  Aligned_cols=172  Identities=24%  Similarity=0.267  Sum_probs=86.4

Q ss_pred             CCCCccchHHHHHHHHHH---Hhc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEA---LKK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~---l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..++|.++...++.+.   +..         .-.+-+.|+|++|+|||||++.+++....     ..+.+...     
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~-----~~i~~~~~-----   83 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGS-----   83 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH-----
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CEEEeeHH-----
Confidence            345566766555444433   221         11234899999999999999999987651     12222211     


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcc------------c----ccccCCCCCCC-
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKEL------------D----LETIGIPVGDR-  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~------------~----~~~l~~~l~~~-  249 (375)
                           .+....        .......+..+++.. .....++++|+++...            .    ...+...+... 
T Consensus        84 -----~~~~~~--------~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~  150 (254)
T 1ixz_A           84 -----DFVEMF--------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  150 (254)
T ss_dssp             -----HHHHSC--------TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             -----HHHHHH--------hhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCC
Confidence                 111100        001112233333333 2457899999984210            0    11111111111 


Q ss_pred             -CCCcEEEEEeCChhHHhh--h---CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          250 -DNCCKILLTTRLQQVCYR--M---GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       250 -~~gs~IivTTr~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                       ....-++.||........  .   .....+.+...+.++-.++++.++......++.  ....+++.+.|.-
T Consensus       151 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  221 (254)
T 1ixz_A          151 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  221 (254)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             CCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCccc--CHHHHHHHcCCCC
Confidence             122344556665544221  1   223567888888888888888765422111111  1345677777654

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.50  E-value=0.00059  Score=58.84  Aligned_cols=93  Identities=13%  Similarity=0.036  Sum_probs=54.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhCCCC----------CCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLGWAL----------TEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----------~~~~~  207 (375)
                      ...++.|+|++|+|||||+..+........    .-..++|+.....+....+ .++++.++...          ...+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL-LAVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH-HHHHHHcCCCHHHHhhCeEEEecCCH
Confidence            457999999999999999999987532211    1246778776654444333 34445554321          11222


Q ss_pred             HHHHHHHHHHhhhcC-CCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESK-SRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~-~kr~LlVlDdv~~  235 (375)
                      .+....+..+...+. .+.-+||+|++..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            333222222222333 4677999998864

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.46  E-value=0.001  Score=58.94  Aligned_cols=172  Identities=24%  Similarity=0.248  Sum_probs=87.2

Q ss_pred             CCCCccchHHHHHHHHHHH---hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEAL---KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+..++|.++...++.+..   ..         .-.+-+.|+|++|+|||||++.+++....     ..+.+...     
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~-----~~i~~~~~-----  107 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGS-----  107 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH-----
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCC-----CEEEecHH-----
Confidence            4556777776655554432   21         01223899999999999999999987651     12222211     


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcc----------------cccccCCCCCCC-
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKEL----------------DLETIGIPVGDR-  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~----------------~~~~l~~~l~~~-  249 (375)
                       .    +....    .    ......+..+++.. ...+.++++|+++...                .+..+...+... 
T Consensus       108 -~----~~~~~----~----~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~  174 (278)
T 1iy2_A          108 -D----FVEMF----V----GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  174 (278)
T ss_dssp             -H----HHHST----T----THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCC
T ss_pred             -H----HHHHH----h----hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCC
Confidence             1    11100    0    01112222222232 2457899999984210                011111112111 


Q ss_pred             -CCCcEEEEEeCChhHHh-----hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          250 -DNCCKILLTTRLQQVCY-----RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       250 -~~gs~IivTTr~~~v~~-----~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                       .....++.||....+..     .......+.+...+.++-.+++..++......++.  ....++..+.|..
T Consensus       175 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  245 (278)
T 1iy2_A          175 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  245 (278)
T ss_dssp             TTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             CCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCccc--CHHHHHHHcCCCC
Confidence             12234445666544321     11233578888889888888888766422111111  1345677777755

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.44  E-value=0.00077  Score=57.13  Aligned_cols=89  Identities=20%  Similarity=0.167  Sum_probs=50.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCC----------CCCCCHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWA----------LTEKDEEDRA  211 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~----------~~~~~~~~~~  211 (375)
                      ...++.|+|++|+|||||+..+..  ..   -..++|+......+...+. .+...++..          ....+..+..
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~--~~---~~~v~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL--LS---GKKVAYVDTEGGFSPERLV-QMAETRGLNPEEALSRFILFTPSDFKEQR   92 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH--HH---CSEEEEEESSCCCCHHHHH-HHHHTTTCCHHHHHHHEEEECCTTTSHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH--Hc---CCcEEEEECCCCCCHHHHH-HHHHhcCCChHHHhhcEEEEecCCHHHHH
Confidence            467999999999999999999988  21   2356777765544544333 333333221          0111111211


Q ss_pred             HHHHHHhhhcCCCcEEEEEeCCCCc
Q 038205          212 DRLRLMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       212 ~~l~~~~~~l~~kr~LlVlDdv~~~  236 (375)
                      ..+..+......+.-+||+|.+...
T Consensus        93 ~~~~~~~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           93 RVIGSLKKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHHCCTTEEEEEEECCCCC
T ss_pred             HHHHHHHHHhhcCCCEEEEcCcHHH
Confidence            2222211133335789999988643

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.42  E-value=4.7e-05  Score=70.01  Aligned_cols=116  Identities=11%  Similarity=0.043  Sum_probs=64.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSE  220 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  220 (375)
                      ....+++|+|++|+|||||++.+......... ..++.+.-+-.+..... ..+..+....   .........+..   .
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~-~~i~t~ed~~e~~~~~~-~~~v~q~~~~---~~~~~~~~~La~---a  192 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKY-HHILTIEDPIEFVHESK-KCLVNQREVH---RDTLGFSEALRS---A  192 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCC-CEEEEEESSCCSCCCCS-SSEEEEEEBT---TTBSCHHHHHHH---H
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCC-cEEEEccCcHHhhhhcc-ccceeeeeec---cccCCHHHHHHH---H
Confidence            44469999999999999999999887654210 11222211111100000 0000000000   001223345666   8


Q ss_pred             cCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          221 SKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       221 l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      |...+=+|++|++.+.+.++.+...   ...|..||+||+..+....
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~~~  236 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTA---AETGHLVFGTLHTTSAAKT  236 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHHHH
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHH---HhcCCEEEEEEccChHHHH
Confidence            8889999999999876555443222   2346789999998766543

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=97.34  E-value=0.00082  Score=59.86  Aligned_cols=28  Identities=25%  Similarity=0.501  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            3467999999999999999999988765

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.33  E-value=0.00044  Score=62.31  Aligned_cols=50  Identities=22%  Similarity=0.280  Sum_probs=35.6

Q ss_pred             CCCCCccc----hHHHHHHHHHHHhcC---CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          119 RFFSSFET----TESACNQIIEALKKD---STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       119 ~~~~~~~g----r~~~~~~l~~~l~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..|++    +...+..+.+++...   ....+.|+|++|+|||+||..+++...
T Consensus       121 ~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          121 IHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             CCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34555553    344555566666542   246889999999999999999999876

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.33  E-value=0.0019  Score=59.00  Aligned_cols=163  Identities=10%  Similarity=-0.050  Sum_probs=94.7

Q ss_pred             HHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHH
Q 038205          135 IEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRL  214 (375)
Q Consensus       135 ~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l  214 (375)
                      .+.+...-.++..++|+.|.||++.++.+....... .|.....+.+....++..+...+                    
T Consensus        10 ~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~--------------------   68 (343)
T 1jr3_D           10 RAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSIDPNTDWNAIFSLC--------------------   68 (343)
T ss_dssp             HHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECCTTCCHHHHHHHH--------------------
T ss_pred             HHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEecCCCCHHHHHHHh--------------------
Confidence            334443446799999999999999999998876432 23221112222222332222221                    


Q ss_pred             HHHhhhcCCCcEEEEEeCCCC-c--ccccccCCCCCCCCCCcEEEEEeCC-------hhHHhhh-CCCCcccCCCCChHH
Q 038205          215 RLMFSESKSRKILVILDDVWK-E--LDLETIGIPVGDRDNCCKILLTTRL-------QQVCYRM-GCDPRIKLDALDQAE  283 (375)
Q Consensus       215 ~~~~~~l~~kr~LlVlDdv~~-~--~~~~~l~~~l~~~~~gs~IivTTr~-------~~v~~~~-~~~~~~~l~~L~~~e  283 (375)
                      ...  -+.+++-++|+|+++. .  ..++.+...+..-.+++.+|++|..       ..+...+ .....++..+++.++
T Consensus        69 ~~~--plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~  146 (343)
T 1jr3_D           69 QAM--SLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQ  146 (343)
T ss_dssp             HHH--HHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTH
T ss_pred             cCc--CCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHH
Confidence            110  3456677889999865 2  3444443333333346677766543       2344333 333678899999999


Q ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHH
Q 038205          284 GLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKA  321 (375)
Q Consensus       284 ~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  321 (375)
                      ....+.+.+...... --.+.++.+++.++|.+..+..
T Consensus       147 l~~~l~~~~~~~g~~-i~~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          147 LPRWVAARAKQLNLE-LDDAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             HHHHHHHHHHHTTCE-ECHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCC-CCHHHHHHHHHHhchHHHHHHH
Confidence            998887766321111 1145677888888888776643

>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=97.32  E-value=0.00016  Score=64.91  Aligned_cols=24  Identities=38%  Similarity=0.549  Sum_probs=21.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .+++.|+|++|+|||+||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            467889999999999999999876

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=97.25  E-value=0.00065  Score=62.29  Aligned_cols=28  Identities=32%  Similarity=0.488  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCCC
Confidence            4567999999999999999999977654

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.23  E-value=0.00028  Score=59.67  Aligned_cols=41  Identities=29%  Similarity=0.538  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          129 SACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       129 ~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+++|.+.+..  +...+|+|+|++|+|||||++.+......
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~   48 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSA   48 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            455566666543  45679999999999999999999888764

>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=97.22  E-value=0.0026  Score=56.89  Aligned_cols=87  Identities=11%  Similarity=0.040  Sum_probs=54.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHH-HHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDR-ADRLRLM  217 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~-~~~l~~~  217 (375)
                      ++.|.|++|+|||||+.++.........=..++|++....++..     .+++++.+.+      +.+.++. ...+..+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            78999999999999999887765532112457888877666543     3677775433      2233444 3322221


Q ss_pred             hhhcCCCcEEEEEeCCCCc
Q 038205          218 FSESKSRKILVILDDVWKE  236 (375)
Q Consensus       218 ~~~l~~kr~LlVlDdv~~~  236 (375)
                      ...-..+.-|+|+|.+...
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence            0012347789999998654

>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=97.21  E-value=0.0003  Score=71.57  Aligned_cols=45  Identities=24%  Similarity=0.264  Sum_probs=35.2

Q ss_pred             CccchHHHHHHHHHHHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          123 SFETTESACNQIIEALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+.+..
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4668888888877766321         12378999999999999999999877

>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=97.18  E-value=0.00069  Score=69.81  Aligned_cols=46  Identities=26%  Similarity=0.329  Sum_probs=36.1

Q ss_pred             CccchHHHHHHHHHHHhcC---------CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKKD---------STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|.+..+..+...+...         ....+.|+|++|+|||++|+.+.+...
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3578888888887776321         124789999999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.18  E-value=0.00047  Score=57.93  Aligned_cols=44  Identities=25%  Similarity=0.410  Sum_probs=34.8

Q ss_pred             chHHHHHHHHHHHhc---CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          126 TTESACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       126 gr~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +|++.++.|.+.+..   ....+|+|.|++|+||||+++.+......
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            356677778777653   34679999999999999999999887653

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.11  E-value=0.00054  Score=56.91  Aligned_cols=117  Identities=17%  Similarity=0.131  Sum_probs=59.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhC-------C--CCCCCCH----HH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLG-------W--ALTEKDE----ED  209 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-------~--~~~~~~~----~~  209 (375)
                      ...|.|++..|.||||+|-.+.-+.-..+ + .+.++...... ...--..++..++       .  .+.....    ..
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G-~-rV~~vQF~Kg~-~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~  104 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHG-K-NVGVVQFIKGT-WPNGERNLLEPHGVEFQVMATGFTWETQNREADTAA  104 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTT-C-CEEEEESSCCS-SCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEeeCCC-CCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHH
Confidence            45777778888999999988777665432 2 23333322211 1111222333332       1  1111111    12


Q ss_pred             HHHHHHHHhhhcCCCcE-EEEEeCCCCc-----ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          210 RADRLRLMFSESKSRKI-LVILDDVWKE-----LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       210 ~~~~l~~~~~~l~~kr~-LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      ....+....+.+.+.+| |||||++...     ...+.+...+........||+|+|+.
T Consensus       105 a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          105 CMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            22333334446655555 9999997432     12222222233334557899999974

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.11  E-value=0.0021  Score=57.39  Aligned_cols=85  Identities=19%  Similarity=0.103  Sum_probs=46.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec-CCCChhHHHHHHHHHhCCCCCC-CCHHHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS-QDPSIINVQSELVKSLGWALTE-KDEEDRADRLRLMFS  219 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~  219 (375)
                      ...+++++|++|+||||++..+.......... .+..+... ......+.+.......+.+... .+.......+.    
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~-~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~----  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHK-KIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKE----  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCC-CEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHH----
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCC-EEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHH----
Confidence            46799999999999999999998887642222 23333322 2223333344444434433211 22233333332    


Q ss_pred             hcCCCcEEEEEeC
Q 038205          220 ESKSRKILVILDD  232 (375)
Q Consensus       220 ~l~~kr~LlVlDd  232 (375)
                      .+ .+.-++|+|-
T Consensus       179 ~~-~~~dlvIiDT  190 (296)
T 2px0_A          179 LF-SEYDHVFVDT  190 (296)
T ss_dssp             HG-GGSSEEEEEC
T ss_pred             Hh-cCCCEEEEeC
Confidence            23 3445888993

>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=97.10  E-value=0.0029  Score=57.82  Aligned_cols=93  Identities=15%  Similarity=0.105  Sum_probs=54.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhCCCC----------CCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLGWAL----------TEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----------~~~~~  207 (375)
                      ...++.|+|++|+|||||+..++.......    .-..++|++....++...+. +++..++...          ...+.
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCCH
Confidence            467999999999999999999887643211    12467888877766655443 4445554321          11112


Q ss_pred             HHH---HHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 EDR---ADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~---~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      ++.   ...+.........+.-+||+|.+..
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            222   2223332222225567999998854

>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=97.08  E-value=0.0014  Score=61.88  Aligned_cols=92  Identities=18%  Similarity=0.208  Sum_probs=53.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-HHH--
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-EDR--  210 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~~~--  210 (375)
                      ..+.++|+|++|+|||||+..+......... ...+++-+.+.. ...+++.++...-..       .....++ ...  
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~-~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~  228 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIAQEHG-GISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRV  228 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHHHHTC-CCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHH
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhhhccC-cEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHH
Confidence            4568999999999999999999887664322 234555565544 333444444332000       1111222 111  


Q ss_pred             ---HHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          211 ---ADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       211 ---~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                         .-.+.+++...+++.+||++||+.
T Consensus       229 ~~~~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          229 ALTGLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence               123344443446899999999984

>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=97.06  E-value=0.0022  Score=58.68  Aligned_cols=86  Identities=19%  Similarity=0.214  Sum_probs=54.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ...++.|+|++|+|||||+.++.......+  ..++|+.....++..     .+++++....      ..+.++....+.
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            457999999999999999999988765432  246777766555543     4555654322      223344444444


Q ss_pred             HHhhhcCCCcEEEEEeCCCCc
Q 038205          216 LMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~~  236 (375)
                      .+..  ..+.-++|+|.+...
T Consensus       133 ~l~~--~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          133 ELVR--SGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHH--TSCCSEEEEECTTTC
T ss_pred             HHhh--hcCCCeEEehHhhhh
Confidence            4211  245568999987643

>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=97.02  E-value=0.0041  Score=56.35  Aligned_cols=93  Identities=15%  Similarity=0.180  Sum_probs=55.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHHHhCCCC----------CCCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVKSLGWAL----------TEKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----------~~~~~  207 (375)
                      ...++.|+|++|+|||||+..++.......    .-..++|++....++...+. ++++.++...          ...+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCH
Confidence            457999999999999999999887643211    12367888877766655544 4455555432          11222


Q ss_pred             HHHHHHHHHHhhhcC--CCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESK--SRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~--~kr~LlVlDdv~~  235 (375)
                      ++....+..+...+.  .+.-+||+|.+..
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence            322222222222332  4567999998853

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.02  E-value=0.0046  Score=52.59  Aligned_cols=43  Identities=19%  Similarity=0.172  Sum_probs=30.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQD  184 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~  184 (375)
                      ...+++|+|++|+|||||++.+........    .-...+|+.....
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCC
Confidence            457999999999999999999987543211    1334677765443

>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=96.95  E-value=0.0043  Score=57.07  Aligned_cols=84  Identities=18%  Similarity=0.222  Sum_probs=53.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ...++.|.|++|+||||||..+.......+  ..++|++....++..     .+..++....      ..+.++....+.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g--~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~  145 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  145 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCC--CeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHH
Confidence            457899999999999999999887665332  357888877665543     2445554321      223444444444


Q ss_pred             HHhhhcC-CCcEEEEEeCCCC
Q 038205          216 LMFSESK-SRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l~-~kr~LlVlDdv~~  235 (375)
                      .   ... .+.-+||+|.+..
T Consensus       146 ~---l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          146 L---LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             H---HHTTTCCSEEEEECTTT
T ss_pred             H---HHhcCCCCEEEEeChHH
Confidence            4   222 3456999998754

>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=96.92  E-value=0.029  Score=52.65  Aligned_cols=28  Identities=29%  Similarity=0.337  Sum_probs=24.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +.+|.++|++|+||||++..++......
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            6799999999999999999998877653

>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=96.92  E-value=0.0042  Score=56.19  Aligned_cols=93  Identities=13%  Similarity=0.064  Sum_probs=54.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC---------Cc-----cEEEEEEecCCCChhHHHHHHHHHhCCCC-----
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN---------IF-----DKVGIATVSQDPSIINVQSELVKSLGWAL-----  202 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------~f-----~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-----  202 (375)
                      ...++.|+|++|+|||+||..++.......         ..     ..++|++....++...+. ++++.++...     
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~-~~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIM-QMAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHH-HHHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhc
Confidence            457999999999999999999886532110         11     467888877766655554 3455555432     


Q ss_pred             -----CCCCHHHHHHHHHHHhhhcC--CCcEEEEEeCCCC
Q 038205          203 -----TEKDEEDRADRLRLMFSESK--SRKILVILDDVWK  235 (375)
Q Consensus       203 -----~~~~~~~~~~~l~~~~~~l~--~kr~LlVlDdv~~  235 (375)
                           ...+.++....+..+...+.  .+.-+||+|.+..
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  215 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTS  215 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSH
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence                 11222322222222222333  3456999998753

>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=96.89  E-value=0.005  Score=56.31  Aligned_cols=84  Identities=14%  Similarity=0.144  Sum_probs=53.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ...++.|+|++|+|||||+.++.......+  ..++|++....++..     .++.++....      ..+.++....+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g--~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAG--GIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            467999999999999999999987665332  356788777655542     3455554321      123344434333


Q ss_pred             HHhhhc-CCCcEEEEEeCCCC
Q 038205          216 LMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      .   .. ..+.-+||+|.+..
T Consensus       133 ~---l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          133 M---LVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             H---HHTTTCCSEEEEECGGG
T ss_pred             H---HHhcCCCCEEEEcChHh
Confidence            3   22 33566999998754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.89  E-value=0.00054  Score=56.80  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=23.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....+++|+|++|+|||||++.+...
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34578999999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.88  E-value=0.0006  Score=56.17  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999987653

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.88  E-value=0.0014  Score=60.18  Aligned_cols=44  Identities=14%  Similarity=0.080  Sum_probs=32.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC-CccEEEEEEecCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN-IFDKVGIATVSQDP  185 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~  185 (375)
                      ...+.++|+|++|+|||||++.+.+.....+ .+.+ +++-+.+..
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER~  216 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDERP  216 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSCH
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCCh
Confidence            4678999999999999999999988765432 2333 346666543

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.88  E-value=0.00067  Score=56.88  Aligned_cols=30  Identities=30%  Similarity=0.373  Sum_probs=26.2

Q ss_pred             hcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          139 KKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       139 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ......+|.|+|++|+||||+++.+.....
T Consensus        21 ~~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           21 LDQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             HTSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345678999999999999999999998876

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.87  E-value=0.00064  Score=57.02  Aligned_cols=27  Identities=37%  Similarity=0.543  Sum_probs=23.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+|+|+|++|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            456799999999999999999998766

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.86  E-value=0.00064  Score=57.01  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=23.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||++.+....
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            35699999999999999999998764

>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=96.85  E-value=0.0049  Score=57.43  Aligned_cols=93  Identities=14%  Similarity=0.100  Sum_probs=52.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEEecCCCChhHHHHHHHHHhCCCCC----------CCCH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIATVSQDPSIINVQSELVKSLGWALT----------EKDE  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~  207 (375)
                      ...++.|+|++|+|||||+..++-.....    ..-..++|+.....+.... +..+++.++....          ....
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~r-l~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR-LVSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHH-HHHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHH-HHHHHHHcCCChHhHhhcEEEeccCCh
Confidence            46799999999999999999775332211    1234577877665554443 3446666654211          1122


Q ss_pred             HHHHHHHHHHhhhc-CCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSES-KSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l-~~kr~LlVlDdv~~  235 (375)
                      ......+......+ ..+.-+||+|.+..
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence            22222222222222 23677999998643

>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=96.84  E-value=0.0029  Score=63.99  Aligned_cols=170  Identities=16%  Similarity=0.172  Sum_probs=77.3

Q ss_pred             CCccchHHHHHHHHHHHhc-------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALKK-------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|.++..+.|.+.+.-             ...+-+.++||+|+|||.+|+.+++.....       ++.++.    .
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~~----~  545 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIKG----P  545 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECCH----H
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEecc----c
Confidence            3445667777776665421             124568899999999999999999987632       222221    1


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc----------------ccccCCCCC--CCC
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD----------------LETIGIPVG--DRD  250 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  250 (375)
                          +++.    .....+.......+..   +-...+++|+||+++....                ...+...+.  ...
T Consensus       546 ----~l~s----~~vGese~~vr~lF~~---Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~  614 (806)
T 3cf2_A          546 ----ELLT----MWFGESEANVREIFDK---ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  614 (806)
T ss_dssp             ----HHHT----TTCSSCHHHHHHHHHH---HHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSS
T ss_pred             ----hhhc----cccchHHHHHHHHHHH---HHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCC
Confidence                1111    1122333333333333   4456899999999864210                111111111  112


Q ss_pred             CCcEEEEEeCChhH-----HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCc
Q 038205          251 NCCKILLTTRLQQV-----CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGL  315 (375)
Q Consensus       251 ~gs~IivTTr~~~v-----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  315 (375)
                      .+.-||-||...+.     .....-...+.+...+.++-.++|+.+.......++.  -...|++.+.|+
T Consensus       615 ~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~--dl~~la~~t~g~  682 (806)
T 3cf2_A          615 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGF  682 (806)
T ss_dssp             SSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC---------------
T ss_pred             CCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCC--CHHHHHHhCCCC
Confidence            23334445543322     1111234567777777777778887766432211111  124455566554

>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=96.82  E-value=0.0028  Score=62.29  Aligned_cols=28  Identities=32%  Similarity=0.424  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++|+|++|+|||||++.+.....
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~~  394 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFYD  394 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4567999999999999999999977654

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.77  E-value=0.00083  Score=55.26  Aligned_cols=24  Identities=42%  Similarity=0.499  Sum_probs=21.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+|++|+|||||++.+.....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988765

>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=96.77  E-value=0.00076  Score=61.65  Aligned_cols=51  Identities=20%  Similarity=0.119  Sum_probs=37.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |..+..++|.+..+..+..........-+.|+|++|+|||++|+.+.+...
T Consensus        20 ~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           20 VFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            445667888888666654444333334589999999999999999998764

>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=96.77  E-value=0.01  Score=53.65  Aligned_cols=30  Identities=27%  Similarity=0.419  Sum_probs=25.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ..+.+++|+|++|+||||+++.+....+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            346799999999999999999998877653

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.76  E-value=0.00082  Score=55.00  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.|++|+||||+++.+.....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5899999999999999999988764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.76  E-value=0.00067  Score=55.38  Aligned_cols=23  Identities=39%  Similarity=0.365  Sum_probs=20.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      ...+++|+|++|+|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            45799999999999999999644

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.75  E-value=0.00075  Score=54.95  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|+|+|++|+||||+++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999988754

>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=96.75  E-value=0.00087  Score=56.61  Aligned_cols=28  Identities=29%  Similarity=0.355  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+|+|+||+|+|||||++.+.....
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            3467999999999999999999988764

>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=96.73  E-value=0.0078  Score=55.08  Aligned_cols=95  Identities=15%  Similarity=0.071  Sum_probs=52.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCc----cEEEEEEecCCCChhHHHHHHHHHhCCCC----------CCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIF----DKVGIATVSQDPSIINVQSELVKSLGWAL----------TEKD  206 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~~~wv~~~~~~~~~~~~~~i~~~l~~~~----------~~~~  206 (375)
                      ....++.|+|++|+|||||+..++.........    ..++|+.....+.. .-+..+++..+...          ....
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~-~~i~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP-ERIREIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCH-HHHHHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCH-HHHHHHHHHcCCCHHHHhhCEEEEecCC
Confidence            356899999999999999999998775211111    24577776554332 22334444443211          0111


Q ss_pred             HH---HHHHHHHHHhhhcC---CCcEEEEEeCCCCc
Q 038205          207 EE---DRADRLRLMFSESK---SRKILVILDDVWKE  236 (375)
Q Consensus       207 ~~---~~~~~l~~~~~~l~---~kr~LlVlDdv~~~  236 (375)
                      ..   +....+..+...+.   .+.-+||+|.+...
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence            11   12223333222221   46779999998654

>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=96.72  E-value=0.0009  Score=56.42  Aligned_cols=28  Identities=25%  Similarity=0.443  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        18 ~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           18 AVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3467999999999999999999988763

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.72  E-value=0.00098  Score=55.81  Aligned_cols=27  Identities=37%  Similarity=0.438  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|.|+|++|+||||+++.+.....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            456999999999999999999998764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.72  E-value=0.00091  Score=54.28  Aligned_cols=25  Identities=24%  Similarity=0.298  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.|++|+||||+++.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.71  E-value=0.00095  Score=56.34  Aligned_cols=27  Identities=33%  Similarity=0.455  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|+|+|++|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999988755

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.69  E-value=0.02  Score=51.50  Aligned_cols=52  Identities=17%  Similarity=0.213  Sum_probs=36.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      ....++.|.|.+|+|||||+..++......+  ..++|++..  .+...+...+..
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~  117 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIV  117 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHH
Confidence            3467999999999999999999987665433  456666644  344455544443

>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=96.69  E-value=0.0011  Score=53.45  Aligned_cols=27  Identities=37%  Similarity=0.393  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+++|+|+.|+|||||++.+....
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            456799999999999999999998876

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.67  E-value=0.002  Score=57.41  Aligned_cols=29  Identities=21%  Similarity=0.244  Sum_probs=25.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+.+|+|.|++|+|||||++.+......
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34679999999999999999999887764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.66  E-value=0.00085  Score=56.22  Aligned_cols=26  Identities=35%  Similarity=0.374  Sum_probs=22.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.++|+||+|+|||||++.+.....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            46899999999999999999987653

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.64  E-value=0.00095  Score=54.20  Aligned_cols=20  Identities=35%  Similarity=0.700  Sum_probs=18.9

Q ss_pred             cEEEEEcCCCchHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFV  163 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v  163 (375)
                      .+|.|.|++|+||||+++.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.62  E-value=0.0012  Score=55.35  Aligned_cols=26  Identities=31%  Similarity=0.358  Sum_probs=23.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+||||+++.+....
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45699999999999999999998766

>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=96.62  E-value=0.0088  Score=54.79  Aligned_cols=85  Identities=16%  Similarity=0.193  Sum_probs=52.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ...++.|.|++|+||||||.++.......+  ..++|++....++..     .+..++....      ..+.++....+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            467999999999999999999887765432  357788876665533     2455554321      123334444443


Q ss_pred             HHhhhcCCCcEEEEEeCCCC
Q 038205          216 LMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~  235 (375)
                      .+..  ..+.-+||+|.+..
T Consensus       135 ~l~~--~~~~~lVVIDsl~~  152 (356)
T 1u94_A          135 ALAR--SGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHH--HTCCSEEEEECGGG
T ss_pred             HHHh--ccCCCEEEEcCHHH
Confidence            3211  23455999998753

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.62  E-value=0.001  Score=56.71  Aligned_cols=27  Identities=33%  Similarity=0.395  Sum_probs=23.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+++|+|++|+|||||++.+....
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            346799999999999999999998865

>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=96.61  E-value=0.0021  Score=58.37  Aligned_cols=107  Identities=16%  Similarity=0.077  Sum_probs=59.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      ...++|+|++|+|||||++.+.......   ...+.+.-......... .   ..++.-..  ........+..   .+.
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~~---~g~i~i~~~~e~~~~~~-~---~~i~~~~g--gg~~~r~~la~---aL~  238 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPKE---ERIISIEDTEEIVFKHH-K---NYTQLFFG--GNITSADCLKS---CLR  238 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCTT---SCEEEEESSCCCCCSSC-S---SEEEEECB--TTBCHHHHHHH---HTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCC---CcEEEECCeeccccccc-h---hEEEEEeC--CChhHHHHHHH---Hhh
Confidence            4689999999999999999998876542   23333332211110000 0   00000000  12233445555   777


Q ss_pred             CCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhH
Q 038205          223 SRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                      .++-+|++|++.+.+.++.+. .+..  .+..+|+||+..+.
T Consensus       239 ~~p~ilildE~~~~e~~~~l~-~~~~--g~~tvi~t~H~~~~  277 (330)
T 2pt7_A          239 MRPDRIILGELRSSEAYDFYN-VLCS--GHKGTLTTLHAGSS  277 (330)
T ss_dssp             SCCSEEEECCCCSTHHHHHHH-HHHT--TCCCEEEEEECSSH
T ss_pred             hCCCEEEEcCCChHHHHHHHH-HHhc--CCCEEEEEEcccHH
Confidence            888899999998754444332 2221  12347888887553

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.60  E-value=0.0019  Score=58.63  Aligned_cols=45  Identities=13%  Similarity=0.192  Sum_probs=37.4

Q ss_pred             CCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          122 SSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|+++.+..+...+..+  .-+.++|++|+|||+||+.+.+...
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            45678888888888887664  4688999999999999999988764

>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=96.60  E-value=0.007  Score=54.23  Aligned_cols=29  Identities=21%  Similarity=0.304  Sum_probs=25.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+.++.|+|++|+||||++..++......
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            35799999999999999999999887653

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.60  E-value=0.0014  Score=53.54  Aligned_cols=26  Identities=35%  Similarity=0.515  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+|+|+|++|+||||+++.+....
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999998764

>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=96.59  E-value=0.018  Score=54.35  Aligned_cols=93  Identities=18%  Similarity=0.208  Sum_probs=58.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC-------------CCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGWA-------------LTEKD  206 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------------~~~~~  206 (375)
                      ...+.++|.|.+|+|||+|+..+.+.... .+-+.++++-+.+.. ...++++++...-...             ..+.+
T Consensus       151 gkGQr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p  229 (482)
T 2ck3_D          151 AKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEP  229 (482)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSC
T ss_pred             ccCCeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCC
Confidence            46789999999999999999999887532 223456677776654 4556666666542111             01111


Q ss_pred             H-H-----HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          207 E-E-----DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       207 ~-~-----~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                      . .     .....+.+++..-+++.+||++||+.
T Consensus       230 ~~~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsit  263 (482)
T 2ck3_D          230 PGARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  263 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence            1 1     12233445444446899999999975

>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=96.59  E-value=0.0013  Score=56.12  Aligned_cols=27  Identities=15%  Similarity=0.177  Sum_probs=24.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+||+|+|||||++.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            467999999999999999999988764

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.58  E-value=0.013  Score=55.12  Aligned_cols=29  Identities=21%  Similarity=0.359  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+.+|.++|++|+||||++..++......
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36799999999999999999998776643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.58  E-value=0.0012  Score=54.46  Aligned_cols=29  Identities=38%  Similarity=0.526  Sum_probs=25.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+|.|.|++|+||||+++.+......
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            34678999999999999999999988764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.56  E-value=0.0013  Score=53.84  Aligned_cols=22  Identities=32%  Similarity=0.299  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+|.|.|++|+||||+++.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4789999999999999999987

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.56  E-value=0.0012  Score=55.42  Aligned_cols=26  Identities=15%  Similarity=0.362  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+++.+.....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988763

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.55  E-value=0.0014  Score=53.96  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.|.|+|++|+||||+++.+.....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988764

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.55  E-value=0.00071  Score=57.73  Aligned_cols=109  Identities=13%  Similarity=-0.003  Sum_probs=59.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCC---CCHHHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTE---KDEEDRADRLRLMF  218 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~l~~~~  218 (375)
                      ...++.|+|+.|+||||++..+..+....+.  .+..+.....  .. ...++++.++.....   ....+....+.+  
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~--kVli~~~~~d--~r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~--   83 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADV--KYLVFKPKID--TR-SIRNIQSRTGTSLPSVEVESAPEILNYIMS--   83 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTC--CEEEEEECCC--GG-GCSSCCCCCCCSSCCEEESSTHHHHHHHHS--
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCC--EEEEEEeccC--ch-HHHHHHHhcCCCccccccCCHHHHHHHHHH--
Confidence            4578999999999999999988887765422  2233322211  11 112344444432221   122233333333  


Q ss_pred             hhcCCCc-EEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCC
Q 038205          219 SESKSRK-ILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRL  261 (375)
Q Consensus       219 ~~l~~kr-~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~  261 (375)
                       .+.+.+ -+||+|++...  +.++.+ ..+..  .|..||+|.+.
T Consensus        84 -~~~~~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           84 -NSFNDETKVIGIDEVQFFDDRICEVA-NILAE--NGFVVIISGLD  125 (223)
T ss_dssp             -TTSCTTCCEEEECSGGGSCTHHHHHH-HHHHH--TTCEEEEECCS
T ss_pred             -HhhCCCCCEEEEecCccCcHHHHHHH-HHHHh--CCCeEEEEecc
Confidence             444444 49999998642  222222 11211  26789999884

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.54  E-value=0.0014  Score=56.87  Aligned_cols=27  Identities=22%  Similarity=0.313  Sum_probs=23.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+|+|.|++|+|||||++.+....
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999998764

>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=96.53  E-value=0.0013  Score=56.61  Aligned_cols=28  Identities=25%  Similarity=0.480  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~   56 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCLDK   56 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            3467999999999999999999976554

>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=96.52  E-value=0.0015  Score=58.84  Aligned_cols=29  Identities=28%  Similarity=0.402  Sum_probs=25.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+|+|+|++|+|||||++.+......
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            45679999999999999999999887764

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.52  E-value=0.0025  Score=62.67  Aligned_cols=28  Identities=25%  Similarity=0.446  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++|+|++|+|||||++.+.....
T Consensus       367 ~~Ge~~~ivG~sGsGKSTll~~l~g~~~  394 (587)
T 3qf4_A          367 KPGSLVAVLGETGSGKSTLMNLIPRLID  394 (587)
T ss_dssp             CTTCEEEEECSSSSSHHHHHHTTTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            3567999999999999999999876554

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.52  E-value=0.0013  Score=55.29  Aligned_cols=27  Identities=33%  Similarity=0.333  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|.|+|++|+||||+++.+.....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            357899999999999999999988663

>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=96.51  E-value=0.0016  Score=54.32  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|+|+||+|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            467999999999999999999987654

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=96.50  E-value=0.0041  Score=64.09  Aligned_cols=118  Identities=14%  Similarity=0.163  Sum_probs=62.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh-hh---hcCCccEEEEEEecCCC-------Ch-----------hHHHHHHHHHhC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ-LR---QNNIFDKVGIATVSQDP-------SI-----------INVQSELVKSLG  199 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~-~~---~~~~f~~~~wv~~~~~~-------~~-----------~~~~~~i~~~l~  199 (375)
                      ...+++|+|++|+|||||++.+..- ..   ..... ..  +.+.+..       +.           .....+++..++
T Consensus       460 ~Ge~v~LiGpNGsGKSTLLk~LagG~i~g~~~~~~~-~~--~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lg  536 (986)
T 2iw3_A          460 RARRYGICGPNGCGKSTLMRAIANGQVDGFPTQEEC-RT--VYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFG  536 (986)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHTCSTTCCCTTTS-CE--EETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCccccce-eE--EEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcC
Confidence            4679999999999999999999841 10   00011 11  2233221       11           122334455555


Q ss_pred             CC-------CCCCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc---ccccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          200 WA-------LTEKDE-EDRADRLRLMFSESKSRKILVILDDVWKELD---LETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       200 ~~-------~~~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      ..       ....+. +...-.+..   .+..++-+|+||+..+.-+   -..+...+..  .|..||++|++......
T Consensus       537 L~~~~~~~~~~~LSGGqkQRvaLAr---AL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g~tvIivSHdl~~l~~  610 (986)
T 2iw3_A          537 FTDEMIAMPISALSGGWKMKLALAR---AVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CGITSITISHDSVFLDN  610 (986)
T ss_dssp             CCHHHHHSBGGGCCHHHHHHHHHHH---HHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SCSEEEEECSCHHHHHH
T ss_pred             CChhhhcCCcccCCHHHHHHHHHHH---HHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CCCEEEEEECCHHHHHH
Confidence            42       011122 122223333   6667788999998765421   1111111211  36789999998766543

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.49  E-value=0.0014  Score=54.26  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+++|+|++|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>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=96.48  E-value=0.0016  Score=56.47  Aligned_cols=27  Identities=19%  Similarity=0.234  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.+|+|+|++|+|||||++.+.....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357999999999999999999996553

>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=96.48  E-value=0.0017  Score=55.44  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=22.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..+|+|+|++|+||||+++.+....
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998755

>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=96.46  E-value=0.0017  Score=53.54  Aligned_cols=26  Identities=38%  Similarity=0.592  Sum_probs=23.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999999998765

>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=96.46  E-value=0.002  Score=57.77  Aligned_cols=28  Identities=32%  Similarity=0.466  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+||||+++.++.....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4679999999999999999999877664

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.43  E-value=0.018  Score=54.15  Aligned_cols=29  Identities=38%  Similarity=0.520  Sum_probs=25.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+++|.++|.+|+||||++..++......
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            35799999999999999999998877654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.43  E-value=0.0035  Score=53.31  Aligned_cols=41  Identities=22%  Similarity=0.259  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ++....+...+.......|.|+|.+|+|||||+..+.....
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            34445555555556678999999999999999999987754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.43  E-value=0.0016  Score=55.72  Aligned_cols=27  Identities=30%  Similarity=0.400  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+..-..
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~~   55 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLDA   55 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            457999999999999999999976554

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.43  E-value=0.0016  Score=53.83  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|+||+|+|||||++.+.....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            5688999999999999999987654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.41  E-value=0.0017  Score=53.59  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=23.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+|.|.|++|+||||+++.+......
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987763

>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=96.41  E-value=0.002  Score=53.32  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999987663

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.40  E-value=0.0032  Score=60.39  Aligned_cols=44  Identities=18%  Similarity=0.151  Sum_probs=37.0

Q ss_pred             CccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          123 SFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+++.++.+...+..+  .-+.|+|++|+|||+||+.+.+...
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHh
Confidence            4678888888888777654  4788999999999999999998774

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.39  E-value=0.0018  Score=53.79  Aligned_cols=25  Identities=44%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+++|+|++|+|||||++.+.....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            4789999999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.38  E-value=0.0018  Score=56.72  Aligned_cols=28  Identities=18%  Similarity=0.378  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~~   57 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFLEK   57 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3567999999999999999999977654

>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=96.38  E-value=0.0019  Score=52.96  Aligned_cols=26  Identities=38%  Similarity=0.414  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.|.|.|++|+||||+++.+.....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999987654

>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=96.37  E-value=0.012  Score=55.70  Aligned_cols=93  Identities=18%  Similarity=0.185  Sum_probs=59.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC--------------CCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGWA--------------LTEK  205 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~--------------~~~~  205 (375)
                      ...+.++|.|.+|+|||+|+..+.+.... .+-+.++++-+.... ...++.+++...=...              ..+.
T Consensus       163 gkGqr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~  241 (498)
T 1fx0_B          163 RRGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  241 (498)
T ss_dssp             CTTCCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTS
T ss_pred             ccCCeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCC
Confidence            45789999999999999999999887543 223566777777665 4556666665531111              0011


Q ss_pred             CH------HHHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          206 DE------EDRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       206 ~~------~~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                      +.      ....-.+.+++..-+++.+||++||+.
T Consensus       242 p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          242 PPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             CHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence            11      122233445443446799999999974

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.36  E-value=0.0045  Score=56.32  Aligned_cols=43  Identities=23%  Similarity=0.325  Sum_probs=31.8

Q ss_pred             chHHHHHHHHHHHh----cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          126 TTESACNQIIEALK----KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       126 gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.+...+.+++.+.    .+....|.|+|++|+||||+++.++....
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            34555666666653    34455699999999999999999887765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.36  E-value=0.0021  Score=55.61  Aligned_cols=27  Identities=19%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .. .+++|+|++|+|||||++.+..-..
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCCC
Confidence            45 7999999999999999999987654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.35  E-value=0.0031  Score=53.43  Aligned_cols=42  Identities=26%  Similarity=0.292  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          127 TESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       127 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..+.+...+.....+.|+|+|.+|+|||||+..+.....
T Consensus        14 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           14 NKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            344555565655556678999999999999999999987754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.35  E-value=0.0019  Score=52.78  Aligned_cols=25  Identities=36%  Similarity=0.529  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..|.|.|++|+||||+++.+.....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999988764

>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=96.33  E-value=0.0021  Score=56.40  Aligned_cols=28  Identities=21%  Similarity=0.271  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~~   75 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLED   75 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCCC
Confidence            3567999999999999999999987654

>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=96.33  E-value=0.0025  Score=52.59  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....|.|+|++|+||||+++.+...
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            4568999999999999999999886

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.33  E-value=0.002  Score=56.14  Aligned_cols=25  Identities=20%  Similarity=0.157  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.|++|+||||||+.+.....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999987654

>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=96.33  E-value=0.0029  Score=51.38  Aligned_cols=29  Identities=21%  Similarity=0.129  Sum_probs=24.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ..++++|.|++|+|||||+..+......+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            35789999999999999999999887643

>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=96.32  E-value=0.002  Score=56.90  Aligned_cols=27  Identities=30%  Similarity=0.434  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+..-..
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~~   59 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGILK   59 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            467999999999999999999976554

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.32  E-value=0.0024  Score=52.93  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|.|.|++|+||||+++.+.....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356899999999999999999987654

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.32  E-value=0.0039  Score=57.40  Aligned_cols=45  Identities=27%  Similarity=0.186  Sum_probs=34.7

Q ss_pred             ccchHHHHHHHHHHHh-------------c--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALK-------------K--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~-------------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.+..++.+...+.             .  .....+.++|++|+|||++|+.+++...
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            3677777777777662             1  1345789999999999999999998774

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.31  E-value=0.0025  Score=55.47  Aligned_cols=26  Identities=31%  Similarity=0.506  Sum_probs=22.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+|+|+|++|+||||+++.+....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            45699999999999999999998554

>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=96.30  E-value=0.0023  Score=53.79  Aligned_cols=26  Identities=42%  Similarity=0.627  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+|+|+|++|+||||+++.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35689999999999999999998764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.28  E-value=0.0024  Score=52.82  Aligned_cols=26  Identities=23%  Similarity=0.165  Sum_probs=22.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.+|.|.|++|+||||+++.+.....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999987653

>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=96.28  E-value=0.0019  Score=54.74  Aligned_cols=27  Identities=41%  Similarity=0.682  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.++...+
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~~   60 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYLK   60 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            457999999999999999999987654

>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=96.28  E-value=0.0023  Score=55.87  Aligned_cols=28  Identities=29%  Similarity=0.588  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl~~   66 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTLIK   66 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3567999999999999999999987654

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.28  E-value=0.0022  Score=53.65  Aligned_cols=22  Identities=41%  Similarity=0.632  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+|+|+|++|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999987

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.28  E-value=0.0024  Score=53.30  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=22.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|+|.|++|+||||+++.+.....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999998765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.28  E-value=0.0025  Score=51.52  Aligned_cols=26  Identities=35%  Similarity=0.505  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+|.|++|+||||+++.+.....
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999988765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.28  E-value=0.0027  Score=56.91  Aligned_cols=28  Identities=25%  Similarity=0.399  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+++|+|++|+||||+++.++...+.
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999999887654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.27  E-value=0.0026  Score=52.91  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|+|.|++|+||||+++.+.....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.27  E-value=0.002  Score=54.43  Aligned_cols=24  Identities=38%  Similarity=0.249  Sum_probs=22.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..+++|+|++|+|||||++.+...
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999877

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.26  E-value=0.0024  Score=52.56  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=22.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|.|.|++|+||||+++.+.....
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999987653

>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=96.26  E-value=0.0022  Score=56.06  Aligned_cols=27  Identities=26%  Similarity=0.396  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+..-..
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~   58 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFLK   58 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            457999999999999999999976654

>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=96.26  E-value=0.0026  Score=55.98  Aligned_cols=26  Identities=23%  Similarity=0.428  Sum_probs=23.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....+++|+|++|+|||||++.++.-
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35679999999999999999999885

>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=96.26  E-value=0.0021  Score=56.42  Aligned_cols=27  Identities=37%  Similarity=0.581  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+..-.+
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~~   62 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYLS   62 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            467999999999999999999977554

>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=96.26  E-value=0.0022  Score=52.80  Aligned_cols=25  Identities=32%  Similarity=0.453  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.|++|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.26  E-value=0.0016  Score=55.79  Aligned_cols=26  Identities=31%  Similarity=0.276  Sum_probs=17.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHH-hhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVG-NQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~-~~~  167 (375)
                      ...+++|+|++|+|||||++.+. ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            45799999999999999999998 654

>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=96.26  E-value=0.0023  Score=55.36  Aligned_cols=27  Identities=33%  Similarity=0.474  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.++.-.+
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   57 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            457999999999999999999977654

>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=96.24  E-value=0.0023  Score=53.75  Aligned_cols=22  Identities=45%  Similarity=0.628  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+|+|.|++|+||||+++.+..
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            4799999999999999999976

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=96.24  E-value=0.002  Score=66.44  Aligned_cols=22  Identities=18%  Similarity=0.113  Sum_probs=20.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFV  163 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v  163 (375)
                      ...+++|+||+|.||||+.+.+
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>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=96.24  E-value=0.0052  Score=55.23  Aligned_cols=28  Identities=25%  Similarity=0.351  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+|+|+|++|+|||||++.+.....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4467999999999999999999988654

>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=96.23  E-value=0.0024  Score=55.31  Aligned_cols=28  Identities=18%  Similarity=0.404  Sum_probs=23.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3567999999999999999999976543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.22  E-value=0.0028  Score=53.78  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=24.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|.|.|++|+||||.|+.+.....
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            468999999999999999999998764

>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=96.22  E-value=0.0026  Score=55.34  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=22.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...+++|+|++|+|||||++.+...
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999885

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.22  E-value=0.0029  Score=53.13  Aligned_cols=27  Identities=19%  Similarity=0.478  Sum_probs=24.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+|.|.|++|+||||+++.+......
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            358999999999999999999987764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.21  E-value=0.005  Score=54.73  Aligned_cols=26  Identities=31%  Similarity=0.299  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+.+|.|.|++|+||||+++.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998765

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.21  E-value=0.0026  Score=55.73  Aligned_cols=28  Identities=32%  Similarity=0.370  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+.....
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            3567999999999999999999977543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.21  E-value=0.003  Score=51.51  Aligned_cols=27  Identities=30%  Similarity=0.361  Sum_probs=24.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ++++|+|++|+|||||++.+.......
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            589999999999999999999887754

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.21  E-value=0.0029  Score=52.88  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|+|.|++|+||||+++.+.....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~g   40 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDYS   40 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999987653

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=96.21  E-value=0.028  Score=51.57  Aligned_cols=51  Identities=18%  Similarity=0.153  Sum_probs=34.8

Q ss_pred             HHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCC
Q 038205          133 QIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQD  184 (375)
Q Consensus       133 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~  184 (375)
                      +.++.+.. ...+.++|+|++|+|||+|+..+.+..... ..+.+ +++-+.+.
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccC
Confidence            44555543 567899999999999999999998876542 22333 34555543

>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=96.21  E-value=0.0028  Score=52.82  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...+|+|.|+.|+||||+++.+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4678999999999999999999875

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.20  E-value=0.0051  Score=55.42  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.+|+|.|++|+|||||++.+.....
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45899999999999999999987765

>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=96.20  E-value=0.0025  Score=55.33  Aligned_cols=27  Identities=30%  Similarity=0.541  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+..-..
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   60 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFYI   60 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            457999999999999999999977654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.20  E-value=0.0026  Score=56.04  Aligned_cols=28  Identities=32%  Similarity=0.456  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~   70 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLYQ   70 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4567999999999999999999977654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.19  E-value=0.0042  Score=54.35  Aligned_cols=113  Identities=14%  Similarity=0.098  Sum_probs=59.9

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHH--HhCCCCCCCCHHHHHHHHHH
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVK--SLGWALTEKDEEDRADRLRL  216 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~--~l~~~~~~~~~~~~~~~l~~  216 (375)
                      -....+++|+|++|+|||||++.+.......  +...+++.-.. ..-.... ..+..  .++.  ..   ......+..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~--~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl--~~---~~l~~~la~   93 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGE--DT---KSFADALRA   93 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCS-SSEEEEEEBTT--TB---SCHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCC--CCCEEEEcCCcceeecCCc-ceeeeHHHhCC--CH---HHHHHHHHH
Confidence            4556799999999999999999998876532  12222221110 0000000 00000  0110  01   122344444


Q ss_pred             HhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          217 MFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       217 ~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                         .+..++-+|++|+..+......+...   ...|..|++||++.+...
T Consensus        94 ---aL~~~p~illlDEp~D~~~~~~~l~~---~~~g~~vl~t~H~~~~~~  137 (261)
T 2eyu_A           94 ---ALREDPDVIFVGEMRDLETVETALRA---AETGHLVFGTLHTNTAID  137 (261)
T ss_dssp             ---HHHHCCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEECCSSHHH
T ss_pred             ---HHhhCCCEEEeCCCCCHHHHHHHHHH---HccCCEEEEEeCcchHHH
Confidence               55557779999999755433322111   134678999999866543

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.19  E-value=0.0027  Score=62.76  Aligned_cols=49  Identities=24%  Similarity=0.295  Sum_probs=41.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |..+..++|.+..++.+...+..+  ..+.|+|++|+||||||+.+.....
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            455667889998888887777655  5899999999999999999998765

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.17  E-value=0.0028  Score=55.73  Aligned_cols=28  Identities=25%  Similarity=0.395  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++.-..
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl~~   58 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGLIE   58 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            3567999999999999999999977654

>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=96.16  E-value=0.0028  Score=55.09  Aligned_cols=27  Identities=26%  Similarity=0.378  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            457999999999999999999987654

>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=96.14  E-value=0.0067  Score=52.46  Aligned_cols=27  Identities=19%  Similarity=0.059  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+..|.|.|++|+||||+++.+.....
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            567899999999999999999987653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.14  E-value=0.0024  Score=52.31  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=19.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999987654

>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=96.14  E-value=0.0028  Score=51.40  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.|++|+||||+++.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988754

>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=96.13  E-value=0.0038  Score=52.17  Aligned_cols=27  Identities=37%  Similarity=0.298  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.+|.|.|++|+||||+++.+.....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345899999999999999999988664

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.12  E-value=0.0029  Score=55.11  Aligned_cols=27  Identities=26%  Similarity=0.421  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            457999999999999999999988765

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.12  E-value=0.0029  Score=55.97  Aligned_cols=27  Identities=33%  Similarity=0.327  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~   72 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYEP   72 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            467999999999999999999987654

>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=96.12  E-value=0.006  Score=56.43  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+.++|++|+|||++|+.+++...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            45689999999999999999998773

>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=96.11  E-value=0.0037  Score=55.92  Aligned_cols=29  Identities=17%  Similarity=0.169  Sum_probs=25.2

Q ss_pred             hcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          139 KKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       139 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-+...+++|+|++|+|||||++.+..-.
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34567899999999999999999998776

>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=96.11  E-value=0.0036  Score=53.11  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|.|.|++|+||||+++.+.....
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            346899999999999999999988664

>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=96.10  E-value=0.0033  Score=51.87  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|+|.|++|+||||+++.+.....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999987653

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.07  E-value=0.0038  Score=52.45  Aligned_cols=27  Identities=30%  Similarity=0.473  Sum_probs=24.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+|+|.|++|+||||+++.+......
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            568999999999999999999987654

>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=96.05  E-value=0.0041  Score=52.33  Aligned_cols=28  Identities=21%  Similarity=0.316  Sum_probs=24.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+|+|.|++|+||||+++.+......
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3568999999999999999999988764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.05  E-value=0.0058  Score=53.17  Aligned_cols=27  Identities=26%  Similarity=0.429  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.+|.|+|++|+||||+++.+.....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            356899999999999999999988654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.05  E-value=0.004  Score=57.06  Aligned_cols=28  Identities=25%  Similarity=0.399  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+++|+|++|+||||+++.++.....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            3569999999999999999999887654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.04  E-value=0.0083  Score=50.07  Aligned_cols=40  Identities=13%  Similarity=0.107  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          129 SACNQIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       129 ~~~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..+..++.. +....+.|+||+|+||||+|..+++...
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345555555543 2234799999999999999999988764

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.99  E-value=0.0041  Score=50.16  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999988664

>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=95.99  E-value=0.011  Score=55.50  Aligned_cols=29  Identities=31%  Similarity=0.296  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .+.++.++|++|+||||++..++......
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35689999999999999999998877643

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.99  E-value=0.0099  Score=55.73  Aligned_cols=93  Identities=16%  Similarity=0.144  Sum_probs=54.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc---CCccEEEEEEecCC-CChhHHHHHHHHH--hC-----CCCCCCCH-H
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN---NIFDKVGIATVSQD-PSIINVQSELVKS--LG-----WALTEKDE-E  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~-~~~~~~~~~i~~~--l~-----~~~~~~~~-~  208 (375)
                      ...+.++|.|.+|+|||+|+.++.+.....   ..| .++++-+.+. ....++++++...  +.     ....+.+. .
T Consensus       149 grGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~-~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~  227 (465)
T 3vr4_D          149 VRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDF-AVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIE  227 (465)
T ss_dssp             BTTCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCE-EEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHH
T ss_pred             ccCCEEEEeCCCCcChHHHHHHHHHHHHhccCCCce-EEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHH
Confidence            356788999999999999999998876541   112 4455555544 3455566655442  10     01111222 1


Q ss_pred             -----HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          209 -----DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       209 -----~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                           .....+.+++..-.++.+||++||+.
T Consensus       228 r~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          228 RIATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence                 11223445433335899999999975

>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=95.99  E-value=0.0041  Score=54.40  Aligned_cols=26  Identities=38%  Similarity=0.566  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.98  E-value=0.0041  Score=51.40  Aligned_cols=24  Identities=38%  Similarity=0.599  Sum_probs=22.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998764

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.98  E-value=0.0059  Score=51.48  Aligned_cols=29  Identities=34%  Similarity=0.375  Sum_probs=25.2

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .....+|.|.|++|+||||+++.+.....
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34567999999999999999999988765

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.98  E-value=0.0039  Score=52.65  Aligned_cols=24  Identities=33%  Similarity=0.390  Sum_probs=21.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|+|.|++|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999987653

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.97  E-value=0.0041  Score=52.90  Aligned_cols=27  Identities=19%  Similarity=0.270  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|.|.|++|+||||+++.+.....
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346799999999999999999988764

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.97  E-value=0.0044  Score=51.73  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|.|+.|+||||+++.+....
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.96  E-value=0.0047  Score=50.52  Aligned_cols=28  Identities=36%  Similarity=0.357  Sum_probs=24.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+|+|.|++|+||||+++.+......
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3568999999999999999999887643

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.96  E-value=0.0042  Score=53.02  Aligned_cols=26  Identities=19%  Similarity=0.254  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|.|.|++|+||||+++.+.....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999987653

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.96  E-value=0.0023  Score=53.93  Aligned_cols=25  Identities=28%  Similarity=0.638  Sum_probs=22.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +|+|.|++|+||||+++.+......
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            7899999999999999999887753

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.95  E-value=0.0041  Score=56.87  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        28 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           28 DPGEILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            3467999999999999999999987654

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.93  E-value=0.0037  Score=56.04  Aligned_cols=28  Identities=21%  Similarity=0.323  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            4567999999999999999999977654

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.92  E-value=0.062  Score=50.75  Aligned_cols=39  Identities=21%  Similarity=0.308  Sum_probs=29.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS  182 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  182 (375)
                      ...++.|.|.+|+||||+|.+++......+  ..++|++..
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~g--~~vl~fSlE  234 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE  234 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHTT--CEEEEECSS
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHcC--CEEEEEECC
Confidence            457999999999999999999988776542  245555443

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.90  E-value=0.0044  Score=52.40  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=21.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|+|.|++|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999987653

>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=95.89  E-value=0.0053  Score=55.25  Aligned_cols=32  Identities=22%  Similarity=0.359  Sum_probs=26.2

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      -++.++|+|.|-||+||||++..+...+...+
T Consensus        45 i~~aKVIAIaGKGGVGKTTtavNLA~aLA~~G   76 (314)
T 3fwy_A           45 ITGAKVFAVYGKGGIGKSTTSSNLSAAFSILG   76 (314)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCCceEEEEECCCccCHHHHHHHHHHHHHHCC
Confidence            34678999999999999999999888776543

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.89  E-value=0.024  Score=50.48  Aligned_cols=56  Identities=25%  Similarity=0.353  Sum_probs=34.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec-CCCChhHHHHHHHHHhCC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS-QDPSIINVQSELVKSLGW  200 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~  200 (375)
                      ..+++++|++|+||||++..++......+  ..+.++... +.+.....+.......+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g--~~v~l~~~D~~r~~a~~ql~~~~~~~~v  154 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQLGQQIGV  154 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTT--CCEEEEECCCSSSHHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCCCCHHHHHHHHHHhccCCe
Confidence            56899999999999999999988776532  233444332 222223334444555444

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.88  E-value=0.0049  Score=53.61  Aligned_cols=27  Identities=19%  Similarity=0.310  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|+|.|++|+||||+|+.+.....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            456899999999999999999988654

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.86  E-value=0.01  Score=48.49  Aligned_cols=27  Identities=30%  Similarity=0.337  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .++++|+|++|+|||||+..+......
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            578999999999999999999887654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.85  E-value=0.0045  Score=54.23  Aligned_cols=25  Identities=36%  Similarity=0.442  Sum_probs=22.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..+++|+|++|+|||||++.+....
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            5799999999999999999998765

>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=95.81  E-value=0.0051  Score=58.50  Aligned_cols=28  Identities=32%  Similarity=0.436  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.+....+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            3679999999999999999999887764

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.81  E-value=0.081  Score=50.65  Aligned_cols=27  Identities=26%  Similarity=0.374  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+|.|+|.+|+||||++..+......
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            568999999999999999999876654

>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=95.80  E-value=0.0049  Score=56.23  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++.-..
T Consensus        24 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           24 ESGEYFVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCccHHHHHHHHHcCCC
Confidence            3567999999999999999999987654

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.80  E-value=0.0053  Score=51.04  Aligned_cols=25  Identities=28%  Similarity=0.561  Sum_probs=22.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..+|+|.|+.|+||||+++.+....
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998763

>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=95.80  E-value=0.0054  Score=56.21  Aligned_cols=28  Identities=29%  Similarity=0.421  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.+..-..
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           27 KDGEFVALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHHCCCC
Confidence            3567999999999999999999987654

>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=95.79  E-value=0.0055  Score=56.51  Aligned_cols=28  Identities=25%  Similarity=0.406  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            3467999999999999999999987654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.78  E-value=0.0056  Score=56.17  Aligned_cols=28  Identities=25%  Similarity=0.410  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.++.-..
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           27 KDGEFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            3567999999999999999999987654

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.77  E-value=0.0056  Score=51.52  Aligned_cols=24  Identities=29%  Similarity=0.338  Sum_probs=21.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|.|.|++|+||+|.|+.+.....
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999998765

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.76  E-value=0.0061  Score=52.24  Aligned_cols=26  Identities=23%  Similarity=0.477  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.76  E-value=0.0052  Score=53.37  Aligned_cols=26  Identities=35%  Similarity=0.491  Sum_probs=23.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|+|+|++|+||||+++.+.....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999988664

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=95.75  E-value=0.019  Score=54.47  Aligned_cols=93  Identities=17%  Similarity=0.168  Sum_probs=54.6

Q ss_pred             CCCcEEEEEcCCCchHHHH-HHHHHhhhhhc----CCcc-EEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTL-AKFVGNQLRQN----NIFD-KVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKD  206 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtL-a~~v~~~~~~~----~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~  206 (375)
                      ...+.++|.|.+|+|||+| +..+.+.....    .+-+ .++++-+.+.. ...++.+.+...=..       ...+.+
T Consensus       160 grGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p  239 (510)
T 2ck3_A          160 GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDA  239 (510)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSC
T ss_pred             ccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCC
Confidence            4678899999999999999 55677766521    1223 35666676654 444555555542111       111111


Q ss_pred             H-HH-----HHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          207 E-ED-----RADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       207 ~-~~-----~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                      . ..     ....+.+++.. +++.+||++||+.
T Consensus       240 ~~~r~~a~~~a~tiAEyfrd-~G~dVLli~Dslt  272 (510)
T 2ck3_A          240 APLQYLAPYSGCSMGEYFRD-NGKHALIIYDDLS  272 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHHHT-TTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH-cCCcEEEEEcCHH
Confidence            1 11     12234454434 5899999999974

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=95.74  E-value=0.012  Score=55.24  Aligned_cols=94  Identities=15%  Similarity=0.104  Sum_probs=54.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc--------CCcc-EEEEEEecCCC-ChhHHHHHHHHH--hC------CCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN--------NIFD-KVGIATVSQDP-SIINVQSELVKS--LG------WAL  202 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--------~~f~-~~~wv~~~~~~-~~~~~~~~i~~~--l~------~~~  202 (375)
                      ...+.++|.|.+|+|||+|+.++.+.....        ++-+ .++++-+.+.. ...++.+++...  +.      ...
T Consensus       145 grGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~  224 (464)
T 3gqb_B          145 VRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKA  224 (464)
T ss_dssp             BTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEET
T ss_pred             ccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECC
Confidence            356788999999999999999998876531        1111 44555565543 455555554432  10      011


Q ss_pred             CCCCHHH-----HHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          203 TEKDEED-----RADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       203 ~~~~~~~-----~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                      ++.....     ....+.+++..-+++.+||++||+.
T Consensus       225 d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          225 DDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             TSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            1222211     1233445443345899999999974

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.73  E-value=0.0056  Score=55.96  Aligned_cols=27  Identities=41%  Similarity=0.647  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||.+.++.-..
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            467999999999999999999987654

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=95.72  E-value=0.02  Score=54.40  Aligned_cols=89  Identities=19%  Similarity=0.137  Sum_probs=53.1

Q ss_pred             CCCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCccE-EEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-HH
Q 038205          141 DSTKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFDK-VGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-ED  209 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~~  209 (375)
                      ...+.++|.|.+|+|||+|| ..+.+...    .+. ++++-+.+.. ...++.+.+...=..       ...+.+. ..
T Consensus       173 grGQR~~I~g~~g~GKT~Lal~~I~~~~~----~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r  248 (515)
T 2r9v_A          173 GRGQRELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQ  248 (515)
T ss_dssp             ETTCBEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHH
T ss_pred             ccCCEEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHH
Confidence            46789999999999999995 57777653    342 4566666554 445555555542110       1111111 11


Q ss_pred             -----HHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          210 -----RADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       210 -----~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                           ....+.+++.. +++.+||++||+.
T Consensus       249 ~~a~~~a~tiAEyfrd-~G~dVLli~DslT  277 (515)
T 2r9v_A          249 YIAPYAGCAMGEYFAY-SGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHHHT-TTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHH-cCCcEEEEeccHH
Confidence                 12234454433 5899999999974

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=95.72  E-value=0.019  Score=54.37  Aligned_cols=89  Identities=21%  Similarity=0.145  Sum_probs=53.2

Q ss_pred             CCCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCcc-EEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-HH
Q 038205          141 DSTKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFD-KVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-ED  209 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~~  209 (375)
                      ...+.++|.|.+|+|||+|| ..+.+...    -+ .++++-+.+.. ...++.+.+...=..       ...+.+. ..
T Consensus       160 grGQR~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r  235 (502)
T 2qe7_A          160 GRGQRELIIGDRQTGKTTIAIDTIINQKG----QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLL  235 (502)
T ss_dssp             BTTCBCEEEECSSSCHHHHHHHHHHGGGS----CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHH
T ss_pred             ccCCEEEEECCCCCCchHHHHHHHHHhhc----CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHH
Confidence            45788999999999999995 57777653    33 24566666554 444555555542111       1111111 11


Q ss_pred             -----HHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          210 -----RADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       210 -----~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                           ....+.+++.. +++.+||++||+.
T Consensus       236 ~~a~~~a~tiAEyfrd-~G~dVLl~~Dslt  264 (502)
T 2qe7_A          236 YLAPYAGCAMGEYFMY-KGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHHHT-TTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHH-cCCcEEEEEecHH
Confidence                 12334454434 5899999999974

>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=95.72  E-value=0.0061  Score=56.12  Aligned_cols=28  Identities=25%  Similarity=0.373  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.++.-..
T Consensus        35 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~   62 (372)
T 1v43_A           35 KDGEFLVLLGPSGCGKTTTLRMIAGLEE   62 (372)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3567999999999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.70  E-value=0.0057  Score=53.84  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+|++|+|||||.+.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999999987654

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.67  E-value=0.0068  Score=51.28  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ..+|+|.|+.|+||||+++.+..
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            35899999999999999999976

>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=95.67  E-value=0.0048  Score=56.48  Aligned_cols=28  Identities=25%  Similarity=0.444  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.++.-..
T Consensus        29 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~   56 (353)
T 1oxx_K           29 ENGERFGILGPSGAGKTTFMRIIAGLDV   56 (353)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            3567999999999999999999987654

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.66  E-value=0.0098  Score=55.94  Aligned_cols=45  Identities=24%  Similarity=0.273  Sum_probs=33.8

Q ss_pred             ccchHHHHHHHHHHHhc--------------CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALKK--------------DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++.++.|...+..              ...+-|.++|++|+||||+|+.++....
T Consensus        17 IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           17 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            46777777776655521              1245789999999999999999998775

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.65  E-value=0.0063  Score=51.54  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...|.|.|++|+||||+++.+.....
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999988764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.64  E-value=0.0043  Score=55.25  Aligned_cols=27  Identities=19%  Similarity=0.427  Sum_probs=20.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|+|.|++|+||||+++.+.....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999987654

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.63  E-value=0.0067  Score=50.70  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=21.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +|+|.|+.|+||||+++.+.....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999987654

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.62  E-value=0.014  Score=49.84  Aligned_cols=28  Identities=29%  Similarity=0.395  Sum_probs=25.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+|.|.|++|+||||+++.+......
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4568999999999999999999998875

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.61  E-value=0.0065  Score=55.97  Aligned_cols=27  Identities=26%  Similarity=0.363  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||.+.++.-..
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLEE   54 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCCC
Confidence            457999999999999999999987654

>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=95.59  E-value=0.0076  Score=49.33  Aligned_cols=25  Identities=20%  Similarity=0.316  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.+|+|++|+|||||+..++.-..
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHc
Confidence            4889999999999999999876543

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.59  E-value=0.011  Score=63.57  Aligned_cols=28  Identities=21%  Similarity=0.408  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....|+|+|++|+|||||++.+.+-..
T Consensus      1103 ~~Ge~vaIVG~SGsGKSTL~~lL~rl~~ 1130 (1321)
T 4f4c_A         1103 EPGQTLALVGPSGCGKSTVVALLERFYD 1130 (1321)
T ss_dssp             CTTCEEEEECSTTSSTTSHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCcc
Confidence            3567999999999999999999977654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.58  E-value=0.013  Score=52.09  Aligned_cols=30  Identities=17%  Similarity=0.226  Sum_probs=25.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ....+++|.|++|+|||||+..++......
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~   62 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTA   62 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            456799999999999999999998887643

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.57  E-value=0.007  Score=50.02  Aligned_cols=25  Identities=32%  Similarity=0.211  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      -.|+|+|++|+|||||++.+.....
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCC
Confidence            4789999999999999999987543

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.56  E-value=0.0053  Score=52.57  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...+|+|.|+.|+||||+++.+...
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            4579999999999999999998876

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=95.54  E-value=0.012  Score=55.56  Aligned_cols=94  Identities=16%  Similarity=0.107  Sum_probs=55.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC--ccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH-H-
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI--FDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE-E-  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~-~-  208 (375)
                      ...+.++|.|.+|+|||+|+.++++.....+.  =+.++++-+.+.. ...++.+++...=..       ...+.+. . 
T Consensus       150 grGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r  229 (469)
T 2c61_A          150 VRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVER  229 (469)
T ss_dssp             BTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHH
Confidence            45678899999999999999999987764221  1245555555443 455666666543110       1111111 1 


Q ss_pred             ----HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          209 ----DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       209 ----~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                          .....+.+++..-+++.+||++||+.
T Consensus       230 ~~~~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          230 IVTPRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence                11233444332235799999999964

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.54  E-value=0.0076  Score=51.30  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999987653

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.52  E-value=0.0076  Score=50.86  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=21.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+++.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988663

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.51  E-value=0.0077  Score=53.30  Aligned_cols=24  Identities=33%  Similarity=0.638  Sum_probs=21.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .+.+|+|.|++|+||||+++.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999983

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.51  E-value=0.0096  Score=51.01  Aligned_cols=27  Identities=26%  Similarity=0.195  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|.|.|++|+||||+++.+.....
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999988764

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=95.50  E-value=0.0062  Score=57.34  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=23.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+|.|+|++|+||||++..+......
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~  125 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQK  125 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999887653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.48  E-value=0.0077  Score=54.53  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|+|.|++|+||||||..+.....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            4899999999999999999988764

>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=95.47  E-value=0.0081  Score=55.67  Aligned_cols=27  Identities=37%  Similarity=0.414  Sum_probs=23.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            456799999999999999999998644

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.45  E-value=0.0091  Score=55.10  Aligned_cols=28  Identities=25%  Similarity=0.099  Sum_probs=24.3

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -+...+++|+|++|+|||||++.+....
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3456799999999999999999999754

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.38  E-value=0.011  Score=53.34  Aligned_cols=29  Identities=28%  Similarity=0.299  Sum_probs=25.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...+|+|+|++|+||||++..++......
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~  132 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL  132 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            35799999999999999999998887653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.37  E-value=0.016  Score=56.34  Aligned_cols=29  Identities=34%  Similarity=0.468  Sum_probs=25.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....+++|+|++|+|||||++.+......
T Consensus       367 ~~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          367 RQGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             GSCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             ccceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            35679999999999999999999988764

>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=95.37  E-value=0.029  Score=48.13  Aligned_cols=37  Identities=32%  Similarity=0.479  Sum_probs=28.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      ..+|.|.|++|+||||+++.+....... .+..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeec
Confidence            5799999999999999999999988754 344333333

>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=95.36  E-value=0.03  Score=51.27  Aligned_cols=39  Identities=31%  Similarity=0.508  Sum_probs=29.7

Q ss_pred             HHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          131 CNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       131 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++.+.  .+...+|+|+|.+|+|||||+..+......
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~  105 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIE  105 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            445555554  345779999999999999999998877643

>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=95.35  E-value=0.013  Score=54.16  Aligned_cols=114  Identities=14%  Similarity=0.105  Sum_probs=60.9

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH--hCCCCCCCCHHHHHHHHHHH
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS--LGWALTEKDEEDRADRLRLM  217 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~--l~~~~~~~~~~~~~~~l~~~  217 (375)
                      .....+++|+|++|+|||||++.+........ -..+.++..+-....... ..++.+  ++.     ........+.. 
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~-~g~I~~~e~~~e~~~~~~-~~~v~Q~~~g~-----~~~~~~~~l~~-  204 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTK-SYHIITIEDPIEYVFKHK-KSIVNQREVGE-----DTKSFADALRA-  204 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHS-CCEEEEEESSCCSCCCCS-SSEEEEEEBTT-----TBSCSHHHHHH-
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCC-CcEEEEecccHhhhhccC-ceEEEeeecCC-----CHHHHHHHHHH-
Confidence            34567999999999999999999988765320 012222221110000000 000000  010     11122344555 


Q ss_pred             hhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          218 FSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       218 ~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                        .+...+-+|++|++.+.+.+..+....   ..|..|+.|++..+...
T Consensus       205 --~L~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~~~~  248 (372)
T 2ewv_A          205 --ALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTAID  248 (372)
T ss_dssp             --HTTSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCSHHH
T ss_pred             --HhhhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcchHHH
Confidence              666677899999998655443322221   34667888988765433

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.34  E-value=0.0092  Score=49.55  Aligned_cols=24  Identities=33%  Similarity=0.264  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|++|+|||||.+.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>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=95.34  E-value=0.016  Score=54.30  Aligned_cols=35  Identities=20%  Similarity=0.198  Sum_probs=27.4

Q ss_pred             HHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          133 QIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       133 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.+.+ .....+++|+|++|+|||||++.+.....
T Consensus       158 ~L~~l~-~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          158 NFRRLI-KRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             HHHHHH-TSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHHH-HhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            343433 35567999999999999999999988765

>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=95.34  E-value=0.0097  Score=54.79  Aligned_cols=27  Identities=22%  Similarity=0.304  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...++|+|++|+|||||++.+......
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            568999999999999999999887653

>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=95.33  E-value=0.0094  Score=52.61  Aligned_cols=27  Identities=30%  Similarity=0.391  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...++.|+|++|+|||||+..+.....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999987554

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.29  E-value=0.04  Score=60.88  Aligned_cols=85  Identities=16%  Similarity=0.174  Sum_probs=53.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHH
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRL  214 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l  214 (375)
                      ...+.+.|+||+|+|||+||.++.......  =..++|+.....++...     ++.++.+..      ..+.++....+
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea~~~--G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            356899999999999999999998765533  22466776666555444     455553322      12233333333


Q ss_pred             HHHhhhcCCCcEEEEEeCCC
Q 038205          215 RLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       215 ~~~~~~l~~kr~LlVlDdv~  234 (375)
                      ..+  .-..+..+||+|++.
T Consensus      1498 ~~l--vr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DAL--ARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHH--HHHTCCSEEEESCGG
T ss_pred             HHH--HhcCCCCEEEEcChh
Confidence            331  113467799999984

>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=95.29  E-value=0.0099  Score=53.08  Aligned_cols=26  Identities=31%  Similarity=0.497  Sum_probs=22.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.||.|+|||||+..++....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            35899999999999999999987653

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.29  E-value=0.034  Score=46.93  Aligned_cols=53  Identities=23%  Similarity=0.288  Sum_probs=34.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      ..+|.+-|+.|+||||+++.+.......+ +..+....-+....+-..+++++.
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~~~-~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC-CCcceeeeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999999887643 323333333332233344555554

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.28  E-value=0.014  Score=54.42  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=22.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||.+.+....
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998743

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.28  E-value=0.01  Score=54.13  Aligned_cols=32  Identities=28%  Similarity=0.383  Sum_probs=27.2

Q ss_pred             HhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       138 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.-....+++|+|++|+|||||++.+.+....
T Consensus        66 l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           66 LTCGIGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             SCEETTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             eeecCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            44456789999999999999999999998763

>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=95.27  E-value=0.0096  Score=49.74  Aligned_cols=42  Identities=17%  Similarity=0.064  Sum_probs=21.5

Q ss_pred             chHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          126 TTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       126 gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ++....+.+.+.......-.|+++|.+|+|||||+..+.+..
T Consensus        13 ~~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            344444444444444455678999999999999998887543

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.27  E-value=0.0097  Score=53.53  Aligned_cols=25  Identities=32%  Similarity=0.341  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|+|+.|+|||||+..+.....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999988654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.26  E-value=0.012  Score=50.40  Aligned_cols=26  Identities=27%  Similarity=0.514  Sum_probs=22.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+|+|.|++|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999988754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.21  E-value=0.026  Score=60.76  Aligned_cols=28  Identities=25%  Similarity=0.407  Sum_probs=24.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|+.|+|||||++.+.....
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhccccc
Confidence            3567999999999999999999987654

>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=95.18  E-value=0.011  Score=52.60  Aligned_cols=26  Identities=35%  Similarity=0.284  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.||.|+||||||..++....
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCC
Confidence            46899999999999999999987653

>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=95.17  E-value=0.011  Score=55.54  Aligned_cols=27  Identities=22%  Similarity=0.208  Sum_probs=23.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+|.|+|++|+||||+|+.+....
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346799999999999999999998765

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.16  E-value=0.011  Score=56.18  Aligned_cols=28  Identities=21%  Similarity=0.119  Sum_probs=24.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+++...
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCccc
Confidence            4567999999999999999999987654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.16  E-value=0.026  Score=47.94  Aligned_cols=30  Identities=23%  Similarity=0.486  Sum_probs=25.8

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ......|.|.|+.|+||||+++.+.+....
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            345679999999999999999999988875

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.16  E-value=0.011  Score=53.33  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|+||.|+|||||+..++....
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999988654

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.14  E-value=0.011  Score=52.61  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .+|.|.|++|+||||+++.+...
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            47899999999999999999874

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.12  E-value=0.0096  Score=48.76  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=19.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+|+|.+|+|||||+..+...
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            5899999999999999999874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.11  E-value=0.016  Score=52.72  Aligned_cols=30  Identities=33%  Similarity=0.526  Sum_probs=25.6

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .....+++|+|++|+|||||.+.+......
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            356789999999999999999999876653

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.11  E-value=0.012  Score=47.31  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..|+|+|++|+|||||...+.+.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999764

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.07  E-value=0.016  Score=51.67  Aligned_cols=29  Identities=31%  Similarity=0.296  Sum_probs=25.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ...+++++|++|+||||++..++......
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~  125 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35799999999999999999999887653

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.06  E-value=0.085  Score=45.01  Aligned_cols=22  Identities=32%  Similarity=0.321  Sum_probs=18.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      .+.+.|.|+.|+||||+.....
T Consensus        76 g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHHHHH
Confidence            3689999999999998766554

>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=95.03  E-value=0.013  Score=48.57  Aligned_cols=26  Identities=27%  Similarity=0.143  Sum_probs=22.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.|.|.|++|+||||||..+.....
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC
Confidence            46789999999999999999987654

>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=94.99  E-value=0.051  Score=51.63  Aligned_cols=44  Identities=32%  Similarity=0.502  Sum_probs=33.9

Q ss_pred             chHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          126 TTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       126 gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +..+.+..+...+..++ +.+.|.|++|+||||++..+.......
T Consensus        29 ~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           29 GQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             HHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            44556666666666544 489999999999999999998877654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.92  E-value=0.017  Score=49.61  Aligned_cols=39  Identities=18%  Similarity=0.073  Sum_probs=28.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS  182 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  182 (375)
                      ...++.|.|++|+|||||+..++......+  ..++|++..
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~--~~v~~~~~e   60 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKMG--EPGIYVALE   60 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEESS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEcc
Confidence            457999999999999999988866554321  245666543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.92  E-value=0.012  Score=54.05  Aligned_cols=28  Identities=29%  Similarity=0.361  Sum_probs=24.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....++|+|++|+|||||++.+......
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            4569999999999999999999887653

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.90  E-value=0.095  Score=49.63  Aligned_cols=90  Identities=22%  Similarity=0.168  Sum_probs=52.8

Q ss_pred             CCCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCCC-------CCCCCH-H--
Q 038205          141 DSTKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGWA-------LTEKDE-E--  208 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~-~--  208 (375)
                      ...+.++|.|..|+|||+|+ ..+.+...  . -..++++-+.+.. ...++.+.+...=...       ....+. .  
T Consensus       160 grGQR~~Ifg~~g~GKT~l~l~~I~n~~~--~-dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~  236 (513)
T 3oaa_A          160 GRGQRELIIGDRQTGKTALAIDAIINQRD--S-GIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQY  236 (513)
T ss_dssp             BTTCBCEEEESSSSSHHHHHHHHHHTTSS--S-SCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHH
T ss_pred             ccCCEEEeecCCCCCcchHHHHHHHhhcc--C-CceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHH
Confidence            45778999999999999995 56666432  1 1234667777654 4455556554431110       111111 1  


Q ss_pred             ---HHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          209 ---DRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       209 ---~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                         .....+.+++.. +++.+||++||+.
T Consensus       237 ~a~~~a~tiAEyfrd-~G~dVLli~Dslt  264 (513)
T 3oaa_A          237 LAPYAGCAMGEYFRD-RGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHHH-TTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHh-cCCCEEEEecChH
Confidence               112234444433 6899999999974

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.90  E-value=0.14  Score=49.21  Aligned_cols=90  Identities=13%  Similarity=0.121  Sum_probs=54.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCC-hhHHHHHHHH----HhCC----------CCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPS-IINVQSELVK----SLGW----------ALTEK  205 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~----~l~~----------~~~~~  205 (375)
                      ...+.++|.|..|+|||+|+.++.+...    -+.++++-+.+..+ ..++++++-+    ..+.          ...+.
T Consensus       225 gkGqr~~I~g~~g~GKT~L~~~ia~~~~----~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~  300 (588)
T 3mfy_A          225 AKGGTAAIPGPAGSGKTVTQHQLAKWSD----AQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNM  300 (588)
T ss_dssp             ETTCEEEECSCCSHHHHHHHHHHHHHSS----CSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEEEEECCTTS
T ss_pred             ccCCeEEeecCCCCCHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHHhcccccccccccceEEEEECCCC
Confidence            4678999999999999999999876533    34667777776553 4445555422    1110          01111


Q ss_pred             CHH------HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          206 DEE------DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       206 ~~~------~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      +..      .....+.+++.. .++.+||++|++..
T Consensus       301 p~~~r~~~~~~a~tiAEyfrd-~G~dVLl~~DsltR  335 (588)
T 3mfy_A          301 PVAAREASIYTGITIAEYFRD-MGYDVALMADSTSR  335 (588)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH-TTCEEEEEEECTTT
T ss_pred             CHHHHHHHHHHHHHHHHHHHH-cCCCEEEeecchHH
Confidence            111      112233443332 58999999999863

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.86  E-value=0.05  Score=45.86  Aligned_cols=28  Identities=32%  Similarity=0.554  Sum_probs=24.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ..+|.|-|+.|+||||+++.+.......
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999888753

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=94.82  E-value=0.013  Score=52.94  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..++++|+|+.|+|||||++.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            35789999999999999999998654

>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=94.81  E-value=0.018  Score=45.66  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..+.+|+|++|+||||+...++--.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4588999999999999999887543

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.81  E-value=0.015  Score=56.45  Aligned_cols=26  Identities=35%  Similarity=0.693  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||++.+....
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45799999999999999999998754

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.81  E-value=0.018  Score=54.36  Aligned_cols=32  Identities=28%  Similarity=0.398  Sum_probs=27.1

Q ss_pred             HhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       138 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.-....+++|+|++|+|||||++.+.+....
T Consensus       152 l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~  183 (438)
T 2dpy_A          152 LTVGRGQRMGLFAGSGVGKSVLLGMMARYTRA  183 (438)
T ss_dssp             SCCBTTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHhcccCC
Confidence            44456789999999999999999999988753

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.80  E-value=0.017  Score=45.74  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.|.++|.+|+|||||+..+.+..
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            468999999999999999987653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.80  E-value=0.034  Score=50.81  Aligned_cols=27  Identities=37%  Similarity=0.597  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..+|+|+|++|+|||||...+.....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            367999999999999999999987654

>1fx0_A ATP synthase alpha 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_A*

Probab=94.79  E-value=0.022  Score=54.10  Aligned_cols=88  Identities=19%  Similarity=0.166  Sum_probs=51.3

Q ss_pred             CCcEEEEEcCCCchHHHHH-HHHHhhhhhcCCcc-EEEEEEecCCC-ChhHHHHHHHHHhCC--------CCCCCCH---
Q 038205          142 STKMVGLHGLGGVGKTTLA-KFVGNQLRQNNIFD-KVGIATVSQDP-SIINVQSELVKSLGW--------ALTEKDE---  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~--------~~~~~~~---  207 (375)
                      ..+.++|.|.+|+|||+|| ..+.+...    .+ .++++-+.+.. ...++.+.+...=..        ..++...   
T Consensus       162 rGQR~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~  237 (507)
T 1fx0_A          162 RGQRELIIGDRQTGKTAVATDTILNQQG----QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQY  237 (507)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCCT----TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTT
T ss_pred             cCCEEEEecCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHH
Confidence            4678899999999999995 57777653    23 34566666554 344444444332100        1111111   


Q ss_pred             --HHHHHHHHHHhhhcCCCcEEEEEeCCC
Q 038205          208 --EDRADRLRLMFSESKSRKILVILDDVW  234 (375)
Q Consensus       208 --~~~~~~l~~~~~~l~~kr~LlVlDdv~  234 (375)
                        ......+.+++.. +++.+||++||+.
T Consensus       238 ~a~~~a~tiAEyfrd-~G~dVLli~Dslt  265 (507)
T 1fx0_A          238 LAPYTGAALAEYFMY-RERHTLIIYDDLS  265 (507)
T ss_dssp             HHHHHHHHHHHHHHH-TTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHH-cCCcEEEEEecHH
Confidence              1223344554444 6899999999964

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.79  E-value=0.033  Score=45.48  Aligned_cols=34  Identities=26%  Similarity=0.270  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          132 NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       132 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..+.+ +.....-.|+|+|.+|+|||||...+.+.
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34555 34455668999999999999999998854

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=94.78  E-value=0.023  Score=50.77  Aligned_cols=34  Identities=21%  Similarity=0.340  Sum_probs=26.3

Q ss_pred             HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          131 CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       131 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +++|.+.+.   ..+++++|++|+|||||++.+. ...
T Consensus       156 i~~L~~~l~---G~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          156 IDELVDYLE---GFICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             HHHHHHHTT---TCEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             HHHHHhhcc---CcEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            445555443   4689999999999999999998 544

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.74  E-value=0.017  Score=47.16  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..|+++|++|+|||||...+.+.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.72  E-value=0.018  Score=55.92  Aligned_cols=26  Identities=38%  Similarity=0.612  Sum_probs=23.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||++.+....
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999998754

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.70  E-value=0.016  Score=54.15  Aligned_cols=26  Identities=27%  Similarity=0.226  Sum_probs=21.9

Q ss_pred             CCCcE--EEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKM--VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~v--i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....+  ++|+|++|+|||||++.++..
T Consensus        38 ~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           38 SQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             C-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             cCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            34557  999999999999999999765

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.67  E-value=0.02  Score=49.30  Aligned_cols=26  Identities=23%  Similarity=0.401  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..|.|.|..|+||||+++.+.....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.66  E-value=0.091  Score=43.63  Aligned_cols=50  Identities=16%  Similarity=0.266  Sum_probs=32.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      .|+|=|..|+||||.++.+.+.....+.  .++...-+........++.++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~--~v~~treP~~t~~~~~ir~~l~   51 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGK--KVILKREPGGTETGEKIRKILL   51 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEESSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC--cEEEEECCCCCcHHHHHHHHhh
Confidence            5788899999999999999998876432  2333333333334444555443

>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=94.64  E-value=0.032  Score=53.44  Aligned_cols=44  Identities=11%  Similarity=0.006  Sum_probs=32.8

Q ss_pred             chHHHHHHHHHHH--hcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          126 TTESACNQIIEAL--KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       126 gr~~~~~~l~~~l--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+.+..+.+.+..  ......+|.+.|++|+||||+++.+......
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3445555555544  2234578999999999999999999998874

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.63  E-value=0.019  Score=56.42  Aligned_cols=27  Identities=30%  Similarity=0.607  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.+.....
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gll~  128 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGKQK  128 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            467999999999999999999976543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.60  E-value=0.027  Score=46.28  Aligned_cols=27  Identities=22%  Similarity=0.036  Sum_probs=21.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..++.|+|+.|+||||++..+..+...
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            358899999999999999777666543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.59  E-value=0.094  Score=57.22  Aligned_cols=86  Identities=16%  Similarity=0.174  Sum_probs=54.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCC------CCCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWAL------TEKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~~~~l~  215 (375)
                      ...++.|.|++|+||||||.+++.......  ..++|++........  .   ++.++...      ...+.++....++
T Consensus       731 ~G~lVlI~G~PG~GKTtLal~lA~~aa~~g--~~VlyiS~Ees~~ql--~---A~~lGvd~~~L~i~~~~~leei~~~l~  803 (1706)
T 3cmw_A          731 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI--Y---ARKLGVDIDNLLCSQPDTGEQALEICD  803 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCCCHH--H---HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCceEEEECCCCCCcHHHHHHHHHHHHHcC--CCeEEEeccchHHHH--H---HHHcCCChhheEEecCCcHHHHHHHHH
Confidence            457999999999999999999988766432  246677665554432  2   55565431      2234444444444


Q ss_pred             HHhhhcCCCcEEEEEeCCCCc
Q 038205          216 LMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~~  236 (375)
                      .+..  ..+.-+||+|.+...
T Consensus       804 ~lv~--~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          804 ALAR--SGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHH--HTCCSEEEESCSTTC
T ss_pred             HHHH--ccCCCEEEEechhhh
Confidence            4221  235669999998643

>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=94.58  E-value=0.02  Score=46.74  Aligned_cols=25  Identities=36%  Similarity=0.425  Sum_probs=21.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....|+|+|.+|+|||||...+.+.
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567999999999999999998765

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=94.57  E-value=0.04  Score=48.01  Aligned_cols=38  Identities=21%  Similarity=0.308  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhcC-C-CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          130 ACNQIIEALKKD-S-TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       130 ~~~~l~~~l~~~-~-~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...-+..|+... . ...+.++||+|+|||.+|..+++..
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            344466666543 2 4579999999999999999998854

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.57  E-value=0.021  Score=52.79  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.|.||.|+|||||+..++....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5889999999999999999987654

>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=94.56  E-value=0.018  Score=45.58  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|.++|.+|+|||||+..+....
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            48899999999999999987653

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.55  E-value=0.034  Score=50.79  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=22.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+++|+|++|+|||||++.+.....
T Consensus       215 G~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          215 GRISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CCEEEEECCCCccHHHHHHHHhcccc
Confidence            46899999999999999999987554

>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=94.55  E-value=0.033  Score=48.32  Aligned_cols=26  Identities=38%  Similarity=0.491  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++.+.|.+|+||||++..+.....
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            56889999999999999999987765

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.55  E-value=0.0093  Score=49.87  Aligned_cols=27  Identities=26%  Similarity=0.316  Sum_probs=22.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .....|+|+|++|+|||||.+.+....
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345689999999999999999887654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.53  E-value=0.019  Score=55.71  Aligned_cols=28  Identities=29%  Similarity=0.640  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.++...+.
T Consensus       293 ~Gei~~i~G~nGsGKSTLl~~l~Gl~~p  320 (538)
T 3ozx_A          293 EGEIIGILGPNGIGKTTFARILVGEITA  320 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4579999999999999999999987653

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.52  E-value=0.02  Score=45.59  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.|+|.+|+|||||+..+.+..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999987653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.51  E-value=0.027  Score=45.38  Aligned_cols=25  Identities=28%  Similarity=0.315  Sum_probs=21.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....|+|+|.+|+|||||+..+.+.
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            4568999999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.50  E-value=0.021  Score=55.48  Aligned_cols=28  Identities=29%  Similarity=0.560  Sum_probs=24.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.++.....
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p  338 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVEEP  338 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4579999999999999999999987653

>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=94.50  E-value=0.18  Score=43.81  Aligned_cols=41  Identities=29%  Similarity=0.427  Sum_probs=28.3

Q ss_pred             CCCcEEEEE-cCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCC
Q 038205          141 DSTKMVGLH-GLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQD  184 (375)
Q Consensus       141 ~~~~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  184 (375)
                      ...++|+|+ |.||+||||+|..+..... .+  ..+.-+.....
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g--~~VlliD~D~~   66 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KN--NKVLLIDMDTQ   66 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TT--SCEEEEEECTT
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CC--CCEEEEECCCC
Confidence            356788885 4689999999999998887 43  33444554433

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.49  E-value=0.047  Score=46.52  Aligned_cols=28  Identities=29%  Similarity=0.595  Sum_probs=21.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....|.|-|+.|+||||+++.+.+....
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3568999999999999999999988764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.47  E-value=0.026  Score=46.31  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=22.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....|+|+|.+|+|||||+..+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999987653

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.47  E-value=0.021  Score=46.36  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .....|+|+|.+|+|||||...+..
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhc
Confidence            4566899999999999999988864

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.45  E-value=0.02  Score=46.30  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..|+|+|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999998653

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.43  E-value=0.28  Score=56.12  Aligned_cols=136  Identities=14%  Similarity=0.091  Sum_probs=70.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhh-cC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSE-SK  222 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-l~  222 (375)
                      +-+.++||+|+|||++|+.+.....   .+ ....++.+...+...+...+...+........         ..... -.
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~---~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g---------~~~~P~~~ 1334 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSS---LY-DVVGINFSKDTTTEHILSALHRHTNYVTTSKG---------LTLLPKSD 1334 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCS---SC-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTT---------EEEEEBSS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCC---CC-ceEEEEeecCCCHHHHHHHHHHHhhhccccCC---------ccccCCCC
Confidence            6788999999999999977765432   22 23456666666655555554444321100000         00001 14


Q ss_pred             CCcEEEEEeCCCCc--c------cccccCCCC------CCCC------CCcEEEEEeCChh------HHhh-hCCCCccc
Q 038205          223 SRKILVILDDVWKE--L------DLETIGIPV------GDRD------NCCKILLTTRLQQ------VCYR-MGCDPRIK  275 (375)
Q Consensus       223 ~kr~LlVlDdv~~~--~------~~~~l~~~l------~~~~------~gs~IivTTr~~~------v~~~-~~~~~~~~  275 (375)
                      ++++++.+||+.-.  +      ..+.+...+      ....      .+..+|.++....      +... ......+.
T Consensus      1335 gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~ 1414 (2695)
T 4akg_A         1335 IKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILY 1414 (2695)
T ss_dssp             SSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEE
T ss_pred             CceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEE
Confidence            67899999996421  1      111111111      0011      1233444443221      1111 22235678


Q ss_pred             CCCCChHHHHHHHHHHc
Q 038205          276 LDALDQAEGLDLLRKHA  292 (375)
Q Consensus       276 l~~L~~~e~~~Lf~~~~  292 (375)
                      +...+.++-..+|....
T Consensus      1415 i~~P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1415 LGYPSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CCCCTTTHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHH
Confidence            88888888888887664

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=94.42  E-value=0.024  Score=53.94  Aligned_cols=26  Identities=27%  Similarity=0.210  Sum_probs=23.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+++|+|++|+|||||++.+..-...
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~p   55 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALIP   55 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCCC
Confidence            79999999999999999999876653

>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=94.41  E-value=0.02  Score=45.94  Aligned_cols=24  Identities=42%  Similarity=0.454  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEECCCCccHHHHHHHHhcCC
Confidence            468999999999999999987643

>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=94.39  E-value=0.022  Score=56.01  Aligned_cols=123  Identities=18%  Similarity=0.178  Sum_probs=66.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc-CC--cc-EEEEEEecCC----CChhHHH--------------HHHHHHhC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN-NI--FD-KVGIATVSQD----PSIINVQ--------------SELVKSLG  199 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~--f~-~~~wv~~~~~----~~~~~~~--------------~~i~~~l~  199 (375)
                      ...+++|+|++|+|||||++.+....... +.  +. .+.++.-...    .++.+.+              .+++..++
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~~~  460 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKPLG  460 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcC
Confidence            46799999999999999999999876532 11  11 2333322111    1222221              22333333


Q ss_pred             CCCC------CCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc------ccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          200 WALT------EKDE-EDRADRLRLMFSESKSRKILVILDDVWKELD------LETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       200 ~~~~------~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      ....      ..+. +...-.+..   .+..++-+|+||+..+.-+      +..+...+. ...|..||++|++...+.
T Consensus       461 l~~~~~~~~~~LSGGe~QRv~iAr---aL~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~-~~~g~tvi~vsHd~~~~~  536 (607)
T 3bk7_A          461 IIDLYDRNVEDLSGGELQRVAIAA---TLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLM-EKNEKTALVVEHDVLMID  536 (607)
T ss_dssp             CTTTTTSBGGGCCHHHHHHHHHHH---HHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHH-HHTTCEEEEECSCHHHHH
T ss_pred             CchHhcCChhhCCHHHHHHHHHHH---HHHhCCCEEEEeCCccCCCHHHHHHHHHHHHHHH-HhCCCEEEEEeCCHHHHH
Confidence            3211      1122 222233444   7777888999998765422      112111111 123568999999977665


Q ss_pred             hh
Q 038205          267 RM  268 (375)
Q Consensus       267 ~~  268 (375)
                      .+
T Consensus       537 ~~  538 (607)
T 3bk7_A          537 YV  538 (607)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>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=94.35  E-value=0.023  Score=55.83  Aligned_cols=28  Identities=32%  Similarity=0.462  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++|+|++|+|||||++.+.....
T Consensus       367 ~~G~~~~ivG~sGsGKSTLl~~l~g~~~  394 (582)
T 3b60_A          367 PAGKTVALVGRSGSGKSTIASLITRFYD  394 (582)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhccC
Confidence            3567999999999999999999987654

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=94.34  E-value=0.15  Score=49.04  Aligned_cols=57  Identities=18%  Similarity=0.218  Sum_probs=38.2

Q ss_pred             HHHHHh-cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHH
Q 038205          134 IIEALK-KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSEL  194 (375)
Q Consensus       134 l~~~l~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i  194 (375)
                      .++.|. -...+.++|.|..|+|||+|+.++.+...    -+.++++-+.+.. ...++++++
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWSD----VDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHHHT
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHH
Confidence            334443 24678999999999999999999887643    3456666666553 344444443

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.34  E-value=0.022  Score=50.83  Aligned_cols=35  Identities=34%  Similarity=0.560  Sum_probs=27.3

Q ss_pred             HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          131 CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       131 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ++++..++.   ..+++|+|++|+|||||.+.+.....
T Consensus       160 v~~lf~~l~---geiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          160 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             HHHHHHHhc---CCeEEEECCCCCcHHHHHHHhccccc
Confidence            445555443   36899999999999999999987655

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.34  E-value=0.024  Score=47.83  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999987754

>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=94.33  E-value=0.023  Score=55.93  Aligned_cols=26  Identities=42%  Similarity=0.629  Sum_probs=23.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||++.+....
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45799999999999999999997654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.32  E-value=0.023  Score=45.16  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-|+++|.+|+|||||+..+.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468999999999999999987653

>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=94.31  E-value=0.018  Score=51.54  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=18.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|+|+|++|+|||||.+.++..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4699999999999999997754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.30  E-value=0.027  Score=47.98  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|.|++|+||||+++.+.....
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.27  E-value=0.025  Score=44.84  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=20.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+++|.+|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999887543

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.26  E-value=0.029  Score=47.08  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=22.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....|.|+|++|+|||||+..+.+..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999988754

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.23  E-value=0.16  Score=56.31  Aligned_cols=84  Identities=17%  Similarity=0.197  Sum_probs=54.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ...++.|+|++|+||||||.+++......+  ..++|++.....+..     .++.++.+.+      ..+.++....+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a~~G--~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTT--CCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            467999999999999999999988776432  356787776665543     2556654322      233444444444


Q ss_pred             HHhhhcCCCcEEEEEeCCC
Q 038205          216 LMFSESKSRKILVILDDVW  234 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~  234 (375)
                      .+..  ..+.-++|+|.+.
T Consensus       455 ~lv~--~~~~~lIVIDSL~  471 (2050)
T 3cmu_A          455 ALAR--SGAVDVIVVDSVA  471 (2050)
T ss_dssp             HHHH--HTCCSEEEESCGG
T ss_pred             HHHH--hcCCcEEEECCHH
Confidence            3211  2356699999875

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.21  E-value=0.025  Score=45.11  Aligned_cols=23  Identities=30%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+++|.+|+|||||...+.+..
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            58999999999999999987654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.21  E-value=0.025  Score=45.11  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -.|.++|.+|+|||||+..+.+.
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            35889999999999999998764

>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=94.20  E-value=0.024  Score=45.22  Aligned_cols=24  Identities=38%  Similarity=0.256  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+++|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999987653

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.20  E-value=0.025  Score=45.09  Aligned_cols=23  Identities=22%  Similarity=0.179  Sum_probs=20.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||||...+.+..
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            57899999999999999987654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.18  E-value=0.026  Score=44.82  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999998764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.17  E-value=0.028  Score=44.64  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|+++|.+|+|||||...+.+..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999987643

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.17  E-value=0.03  Score=46.40  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=20.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ....|+++|.+|+|||||...+.+
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345789999999999999999875

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.16  E-value=0.026  Score=45.62  Aligned_cols=25  Identities=36%  Similarity=0.287  Sum_probs=21.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||+..+.+..
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            4578999999999999999887653

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=94.16  E-value=0.026  Score=46.17  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.++|.+|+|||||+..+....
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            368999999999999999997653

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.13  E-value=0.025  Score=45.14  Aligned_cols=21  Identities=52%  Similarity=0.615  Sum_probs=18.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      -|+|+|.+|+|||||+..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999999864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.13  E-value=0.027  Score=55.33  Aligned_cols=119  Identities=18%  Similarity=0.162  Sum_probs=64.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCC--cc--EEEEEEecCCC------Chh--------------HHHHHHHHHhC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNI--FD--KVGIATVSQDP------SII--------------NVQSELVKSLG  199 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~--~~~wv~~~~~~------~~~--------------~~~~~i~~~l~  199 (375)
                      .+++|+|++|+|||||++.+....+...-  ..  .+.++  ++..      +..              ....++++.++
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~--~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~  456 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMK--PQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLR  456 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEE--CSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHT
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEe--cccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcC
Confidence            67999999999999999999887653211  00  12222  2211      111              12223334443


Q ss_pred             CCC------CCCCH-HHHHHHHHHHhhhcCCCcEEEEEeCCCCccc------ccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          200 WAL------TEKDE-EDRADRLRLMFSESKSRKILVILDDVWKELD------LETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       200 ~~~------~~~~~-~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                      ...      ...+. +...-.+..   .|..++-+|+||+....-+      +..+...+. ...|..||++|++...+.
T Consensus       457 l~~~~~~~~~~LSGGqkQRv~iAr---aL~~~p~lLlLDEPT~gLD~~~~~~i~~ll~~l~-~~~g~tviivtHdl~~~~  532 (608)
T 3j16_B          457 IDDIIDQEVQHLSGGELQRVAIVL---ALGIPADIYLIDEPSAYLDSEQRIICSKVIRRFI-LHNKKTAFIVEHDFIMAT  532 (608)
T ss_dssp             STTTSSSBSSSCCHHHHHHHHHHH---HTTSCCSEEEECCTTTTCCHHHHHHHHHHHHHHH-HHHTCEEEEECSCHHHHH
T ss_pred             ChhhhcCChhhCCHHHHHHHHHHH---HHHhCCCEEEEECCCCCCCHHHHHHHHHHHHHHH-HhCCCEEEEEeCCHHHHH
Confidence            211      11222 222334444   7888888999998765422      111111111 123678999999977765


Q ss_pred             hh
Q 038205          267 RM  268 (375)
Q Consensus       267 ~~  268 (375)
                      .+
T Consensus       533 ~~  534 (608)
T 3j16_B          533 YL  534 (608)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.11  E-value=0.027  Score=45.37  Aligned_cols=24  Identities=38%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||...+.+..
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987643

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.10  E-value=0.018  Score=50.34  Aligned_cols=27  Identities=19%  Similarity=0.295  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|.|.|+.|+||||+++.+.....
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            457999999999999999999988763

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.07  E-value=0.03  Score=45.07  Aligned_cols=24  Identities=25%  Similarity=0.339  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            368999999999999999987643

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.07  E-value=0.043  Score=46.53  Aligned_cols=26  Identities=27%  Similarity=0.142  Sum_probs=22.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .|.+.|+||+||||++..+.......
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            47889999999999999988887654

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.07  E-value=0.026  Score=44.93  Aligned_cols=22  Identities=45%  Similarity=0.623  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+++|.+|+|||||...+.+.
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            5789999999999999988653

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.07  E-value=0.026  Score=46.00  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999987653

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.04  E-value=0.029  Score=45.91  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999998876643

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.03  E-value=0.03  Score=45.93  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....|+|+|.+|+|||||...+.+..
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            45689999999999999999987653

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.03  E-value=0.029  Score=44.74  Aligned_cols=24  Identities=29%  Similarity=0.223  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|+|+|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            358999999999999999987543

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.01  E-value=0.028  Score=45.35  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=21.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            357899999999999999998765

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.95  E-value=0.037  Score=48.25  Aligned_cols=27  Identities=30%  Similarity=0.511  Sum_probs=23.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ++|+|.|.||+||||++..+.......
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~   28 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHC
Confidence            578889999999999999998887743

>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=93.95  E-value=0.055  Score=49.22  Aligned_cols=29  Identities=31%  Similarity=0.406  Sum_probs=24.8

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..+|+|+|++|+|||||+..+.....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~   81 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI   81 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            35678999999999999999999987654

>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=93.94  E-value=0.03  Score=46.04  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=20.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...|+++|.+|+|||||...+.+.
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            457899999999999999998764

>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=93.91  E-value=0.032  Score=44.42  Aligned_cols=23  Identities=26%  Similarity=0.179  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -.|+++|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.89  E-value=0.035  Score=45.41  Aligned_cols=25  Identities=28%  Similarity=0.313  Sum_probs=21.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||+..+.+..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4578999999999999999987764

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.84  E-value=0.026  Score=55.54  Aligned_cols=28  Identities=29%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +...+++|+|++|+|||||++.+..-..
T Consensus       379 ~~G~~~~ivG~sGsGKSTll~~l~g~~~  406 (598)
T 3qf4_B          379 KPGQKVALVGPTGSGKTTIVNLLMRFYD  406 (598)
T ss_dssp             CTTCEEEEECCTTSSTTHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            3567999999999999999999987654

>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=93.84  E-value=0.032  Score=45.74  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|.|+|.+|+|||||++.+.+..
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            468999999999999997776543

>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=93.82  E-value=0.034  Score=44.42  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=20.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...|+++|.+|+|||||...+...
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            346899999999999999998654

>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=93.82  E-value=0.035  Score=45.18  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=22.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .....|+++|.+|+|||||...+.+..
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            445678999999999999999998654

>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=93.82  E-value=0.032  Score=45.36  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+|+|.+|+|||||+..+.+..
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58999999999999999998654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.81  E-value=0.039  Score=46.04  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=23.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988775

>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=93.81  E-value=0.032  Score=45.66  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=21.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            3468999999999999998887653

>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=93.80  E-value=0.028  Score=52.58  Aligned_cols=24  Identities=25%  Similarity=0.175  Sum_probs=20.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      -|+|+|++|+|||||++.++....
T Consensus        33 ~I~lvG~sGaGKSTLln~L~g~~~   56 (418)
T 2qag_C           33 TLMVVGESGLGKSTLINSLFLTDL   56 (418)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTCCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCC
Confidence            369999999999999999987543

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=93.79  E-value=0.02  Score=51.21  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+++|+|++|+|||||.+.+.....
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~~~  198 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPELG  198 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             CCEEEEECCCCCCHHHHHHHhccccc
Confidence            46999999999999999999987554

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.78  E-value=0.03  Score=53.85  Aligned_cols=26  Identities=19%  Similarity=0.009  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...++|+|++|+||||+++.+.....
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45699999999999999999988765

>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=93.76  E-value=0.032  Score=45.33  Aligned_cols=24  Identities=21%  Similarity=0.124  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.|+|.+|+|||||+..+.+..
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=93.76  E-value=0.029  Score=45.73  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=20.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+|+|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            57899999999999999987653

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=93.75  E-value=0.065  Score=44.99  Aligned_cols=110  Identities=10%  Similarity=0.017  Sum_probs=51.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhc
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSES  221 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l  221 (375)
                      ...+..++|+-|.||||.+.....+....+ ....++-.. .+  ...-...+.+.++...........    .++++..
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g-~kVli~k~~-~d--~R~ge~~i~s~~g~~~~a~~~~~~----~~~~~~~   98 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAK-QHAIVFKPC-ID--NRYSEEDVVSHNGLKVKAVPVSAS----KDIFKHI   98 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTT-CCEEEEECC--------------------CCEEECSSG----GGGGGGC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCC-CEEEEEEec-cC--CcchHHHHHhhcCCeeEEeecCCH----HHHHHHH
Confidence            356889999999999998888877776532 233332211 11  111112344444332211000000    1222244


Q ss_pred             CCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh
Q 038205          222 KSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ  262 (375)
Q Consensus       222 ~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~  262 (375)
                      .++--+|++|++.-.  +.++.+ ..+.  ..|..||+|.++.
T Consensus        99 ~~~~dvViIDEaQF~~~~~V~~l-~~l~--~~~~~Vi~~Gl~~  138 (214)
T 2j9r_A           99 TEEMDVIAIDEVQFFDGDIVEVV-QVLA--NRGYRVIVAGLDQ  138 (214)
T ss_dssp             CSSCCEEEECCGGGSCTTHHHHH-HHHH--HTTCEEEEEECSB
T ss_pred             hcCCCEEEEECcccCCHHHHHHH-HHHh--hCCCEEEEEeccc
Confidence            443449999998642  333333 2211  1367899999864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.75  E-value=0.042  Score=44.39  Aligned_cols=24  Identities=21%  Similarity=0.243  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..-+.|.|++|+||||||..+...
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            467899999999999999998874

>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=93.75  E-value=0.035  Score=44.64  Aligned_cols=25  Identities=24%  Similarity=0.131  Sum_probs=21.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|.|+|.+|+|||||+..+.+..
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3478999999999999999987654

>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=93.74  E-value=0.029  Score=45.32  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      --|.++|.+|+|||||+..+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999998764

>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=93.73  E-value=0.035  Score=45.31  Aligned_cols=24  Identities=25%  Similarity=0.123  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.72  E-value=0.029  Score=45.26  Aligned_cols=25  Identities=24%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|+|+|.+|+|||||+..+.+..
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999999987643

>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=93.72  E-value=0.033  Score=44.77  Aligned_cols=23  Identities=26%  Similarity=0.154  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -.|+|+|.+|+|||||+..+...
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            36899999999999999998754

>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=93.70  E-value=0.034  Score=45.07  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.|+|.+|+|||||+..+.+..
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            468999999999999999988653

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=93.69  E-value=0.1  Score=47.19  Aligned_cols=32  Identities=38%  Similarity=0.457  Sum_probs=25.9

Q ss_pred             HhcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       138 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+...+++.+.|.||+||||+|..++.....
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~   42 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLAK   42 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            34455678899999999999999998877654

>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=93.68  E-value=0.036  Score=45.46  Aligned_cols=24  Identities=38%  Similarity=0.295  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|+|+|.+|+|||||+..+.+..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999987643

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=93.67  E-value=0.086  Score=45.14  Aligned_cols=39  Identities=31%  Similarity=0.379  Sum_probs=27.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP  185 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  185 (375)
                      .|+|.|.||+||||++..+.......+  ..+.-+......
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~   40 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKIMASDY--DKIYAVDGDPDS   40 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHHHTTTC--SCEEEEEECTTS
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCc
Confidence            366799999999999999998887543  234445444333

>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=93.67  E-value=0.048  Score=48.20  Aligned_cols=28  Identities=25%  Similarity=0.423  Sum_probs=23.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .++|+|.|.||+||||++..+.......
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~   29 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEM   29 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            3678889999999999999998887654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=93.63  E-value=0.022  Score=55.82  Aligned_cols=28  Identities=25%  Similarity=0.453  Sum_probs=23.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....++|+|++|+|||||++.+.....
T Consensus       365 ~~G~~~~ivG~sGsGKSTll~~l~g~~~  392 (578)
T 4a82_A          365 EKGETVAFVGMSGGGKSTLINLIPRFYD  392 (578)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            3567999999999999999999876554

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=93.62  E-value=0.038  Score=45.58  Aligned_cols=22  Identities=45%  Similarity=0.515  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      -.|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999998875

>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=93.62  E-value=0.036  Score=44.92  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..|.|+|.+|+|||||+..+.+..
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCC
Confidence            468999999999999999987653

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.62  E-value=0.022  Score=56.03  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=21.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      -+.++|++|+|||+||+.+.+...
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~  352 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAP  352 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCS
T ss_pred             ceEEECCCchHHHHHHHHHHHhCC
Confidence            589999999999999999987653

>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=93.61  E-value=0.036  Score=44.91  Aligned_cols=22  Identities=32%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+++|.+|+|||||...+.+.
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999988754

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=93.60  E-value=0.037  Score=49.41  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            458999999999999999999765

>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=93.60  E-value=0.036  Score=44.72  Aligned_cols=24  Identities=25%  Similarity=0.187  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.|+|.+|+|||||+..+....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999987653

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.58  E-value=0.044  Score=52.90  Aligned_cols=27  Identities=30%  Similarity=0.370  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|.++|++|+||||+|+.+.....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999988765

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=93.56  E-value=0.12  Score=49.28  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=18.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+|+|.+|+|||||...+.+.
T Consensus       235 kV~ivG~~nvGKSSLln~L~~~  256 (476)
T 3gee_A          235 STVIAGKPNAGKSTLLNTLLGQ  256 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988765

>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=93.55  E-value=0.043  Score=45.85  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=21.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..|+|++|+||||+...++--.-
T Consensus        23 ~~~~~I~G~NgsGKStil~ai~~~l~   48 (203)
T 3qks_A           23 EGINLIIGQNGSGKSSLLDAILVGLY   48 (203)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhc
Confidence            46889999999999999998865443

>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=93.55  E-value=0.038  Score=44.68  Aligned_cols=24  Identities=29%  Similarity=0.140  Sum_probs=20.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .-.|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999988764

>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=93.55  E-value=0.037  Score=45.80  Aligned_cols=25  Identities=32%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||+..+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            3478999999999999999987553

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.55  E-value=0.05  Score=45.94  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ....|.+-|+.|+||||+++.+.+....
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3568999999999999999999998864

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=93.54  E-value=0.06  Score=46.11  Aligned_cols=25  Identities=36%  Similarity=0.280  Sum_probs=21.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...++.|.|++|+|||++|.+++..
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            3579999999999999999987654

>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=93.52  E-value=0.03  Score=46.29  Aligned_cols=22  Identities=50%  Similarity=0.522  Sum_probs=19.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      .-.|+|+|.+|+|||||+..+.
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999999985

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.51  E-value=0.041  Score=45.11  Aligned_cols=24  Identities=21%  Similarity=0.146  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            468999999999999999988754

>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=93.51  E-value=0.039  Score=45.76  Aligned_cols=25  Identities=36%  Similarity=0.296  Sum_probs=21.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|+|+|.+|+|||||+..+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999987654

>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=93.50  E-value=0.041  Score=44.37  Aligned_cols=24  Identities=38%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+++|.+|+|||||...+.+..
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999987654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=93.49  E-value=0.1  Score=47.50  Aligned_cols=31  Identities=45%  Similarity=0.547  Sum_probs=25.5

Q ss_pred             HhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       138 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.....+++.+.|.||+||||+|..++....
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            4455568999999999999999998876665

>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=93.49  E-value=0.039  Score=44.66  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||+..+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3578999999999999999987543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=93.47  E-value=0.14  Score=55.82  Aligned_cols=84  Identities=17%  Similarity=0.170  Sum_probs=56.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ..++|-|+|+.|+||||||.++.......  =...+|+...+..+..-     ++.++.+.+      +.+.++....+.
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~--g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            46899999999999999999988665433  34567777776666543     777776543      233344444444


Q ss_pred             HHhhhcC-CCcEEEEEeCCCC
Q 038205          216 LMFSESK-SRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l~-~kr~LlVlDdv~~  235 (375)
                      .   .++ +..-++|+|.|..
T Consensus      1503 ~---~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1503 A---LARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             H---HHHHTCCSEEEESCSTT
T ss_pred             H---HHHcCCCCEEEEccHHh
Confidence            4   332 3555999998753

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=93.46  E-value=0.37  Score=46.17  Aligned_cols=51  Identities=18%  Similarity=0.209  Sum_probs=34.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ...++.|.|++|+|||||+.+++....... =..++|++..  .+...+...++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~E--~s~~~l~~r~~  291 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAMLE--ESVEETAEDLI  291 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEESS--SCHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEecc--CCHHHHHHHHH
Confidence            457999999999999999999987765431 1245666543  34455555443

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.45  E-value=0.041  Score=45.81  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=20.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .-.|+|+|.+|+|||||+..+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            346899999999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.44  E-value=0.042  Score=45.17  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=21.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|+|+|.+|+|||||+..+.+..
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            3468999999999999999998764

>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=93.44  E-value=0.048  Score=44.91  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=21.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..--|+|+|.+|+|||||+..+.+.
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3457899999999999999998765

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=93.44  E-value=0.031  Score=46.05  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      ...-.|+|+|.+|+|||||+..+..
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHh
Confidence            3445799999999999999999864

>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=93.43  E-value=0.042  Score=45.11  Aligned_cols=24  Identities=29%  Similarity=0.248  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999987654

>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=93.40  E-value=0.041  Score=53.27  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=0.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFV  163 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v  163 (375)
                      ...+++|+|++|+|||||++.+
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH

>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=93.39  E-value=0.04  Score=45.99  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=21.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|+|+|.+|+|||||+..+....
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3478999999999999999998753

>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=93.38  E-value=0.046  Score=50.00  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ++.+|+|++|+|||||...++.-
T Consensus        27 g~~~i~G~nG~GKttll~ai~~~   49 (359)
T 2o5v_A           27 GVTGIYGENGAGKTNLLEAAYLA   49 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChhHHHHHHHHh
Confidence            48999999999999999999853

>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=93.38  E-value=0.042  Score=44.94  Aligned_cols=24  Identities=25%  Similarity=0.152  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            478999999999999999987654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.35  E-value=0.042  Score=47.03  Aligned_cols=27  Identities=22%  Similarity=0.198  Sum_probs=22.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....|+|+|.+|+|||||...+.....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~~   54 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRKV   54 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCCc
Confidence            356799999999999999999886543

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=93.35  E-value=0.047  Score=49.60  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .++.+|+|++|+|||||+..++-
T Consensus        23 ~~~~~i~G~NGsGKS~lleAi~~   45 (339)
T 3qkt_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (339)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999998743

>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=93.31  E-value=0.044  Score=45.35  Aligned_cols=24  Identities=21%  Similarity=0.153  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|+|+|.+|+|||||+..+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999987654

>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=93.31  E-value=0.046  Score=44.73  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||...+.+..
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.30  E-value=0.044  Score=45.35  Aligned_cols=25  Identities=32%  Similarity=0.262  Sum_probs=21.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||+..+.+..
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCC
Confidence            4578999999999999999988654

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=93.26  E-value=0.046  Score=44.77  Aligned_cols=24  Identities=25%  Similarity=0.158  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|.|+|.+|+|||||...+.+..
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            368999999999999999987643

>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=93.26  E-value=0.046  Score=44.91  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=20.9

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            457899999999999999998764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.25  E-value=0.045  Score=44.89  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999988654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.24  E-value=0.15  Score=46.17  Aligned_cols=51  Identities=14%  Similarity=0.073  Sum_probs=34.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      ...++.|.|.+|+||||||..++......  =..++|++.  ..+...+...++.
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSl--Ems~~ql~~Rlls   95 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSL--EMSAEQLALRALS   95 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEES--SSCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeC--CCCHHHHHHHHHH
Confidence            45799999999999999999998876642  134555544  3444555555443

>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=93.23  E-value=0.052  Score=46.04  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=21.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ....|+|+|.+|+|||||+..+.+.
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998765

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=93.23  E-value=0.18  Score=43.16  Aligned_cols=23  Identities=30%  Similarity=0.135  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -+.|+|+.|.|||.++..+....
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHc
Confidence            37889999999999998877654

>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=93.23  E-value=0.044  Score=45.78  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...|+|+|.+|+|||||...+.+..
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999987654

>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=93.22  E-value=0.096  Score=49.37  Aligned_cols=44  Identities=25%  Similarity=0.275  Sum_probs=32.9

Q ss_pred             ccchHHHHHHHHHHHhcC-----------CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          124 FETTESACNQIIEALKKD-----------STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~~-----------~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|.++.++.|.+.+...           +...|+|+|++|+|||||...+....
T Consensus       150 g~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          150 NINLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             TBSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            346677777777766321           13479999999999999999998764

>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=93.22  E-value=0.048  Score=44.79  Aligned_cols=25  Identities=28%  Similarity=0.235  Sum_probs=21.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|.++|.+|+|||||...+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999987754

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.20  E-value=0.14  Score=50.85  Aligned_cols=60  Identities=20%  Similarity=0.255  Sum_probs=35.8

Q ss_pred             HHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHH-HHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          130 ACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKF-VGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       130 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~-v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ..+.+...|...  .+..|.||+|.|||+++.. +.+..+.    ...+.++...+..+..+...+.
T Consensus       194 Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~----~~~ILv~a~TN~AvD~i~erL~  254 (646)
T 4b3f_X          194 QKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQ----GLKVLCCAPSNIAVDNLVERLA  254 (646)
T ss_dssp             HHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHT----TCCEEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhC----CCeEEEEcCchHHHHHHHHHHH
Confidence            344454445432  4788999999999975544 4443332    2346666666655556655554

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=93.19  E-value=0.21  Score=47.32  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+|+|.+|+|||||...+.+..
T Consensus       226 kV~ivG~~nvGKSSLln~L~~~~  248 (462)
T 3geh_A          226 KVAIVGRPNVGKSSLLNAWSQSD  248 (462)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987754

>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=93.19  E-value=0.05  Score=44.47  Aligned_cols=24  Identities=25%  Similarity=0.108  Sum_probs=20.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            357899999999999999998754

>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=93.19  E-value=0.061  Score=52.49  Aligned_cols=28  Identities=25%  Similarity=0.250  Sum_probs=24.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+|.|.|++|+||||+|+.+......
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            3568999999999999999999988764

>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=93.18  E-value=0.044  Score=45.18  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .--|.++|.+|+|||||++.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457899999999999999977664

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.18  E-value=0.044  Score=45.41  Aligned_cols=25  Identities=20%  Similarity=0.104  Sum_probs=20.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .--|+|+|.+|+|||||+..+.+..
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3468999999999999999987543

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=93.18  E-value=0.045  Score=44.68  Aligned_cols=22  Identities=23%  Similarity=0.219  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ++.|+|.+|+||||+|..+...
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS
T ss_pred             CEEEECCCCCcHHHHHHHHHhc
Confidence            3789999999999999998865

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.16  E-value=0.1  Score=50.66  Aligned_cols=42  Identities=26%  Similarity=0.344  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHH--hcCCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          128 ESACNQIIEAL--KKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       128 ~~~~~~l~~~l--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+....+.+..  ......+|.+.|++|+||||+++.+......
T Consensus       355 ~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          355 PEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             HHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            34444444444  2234578999999999999999999887654

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.14  E-value=0.047  Score=45.13  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=21.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....|+|+|.+|+|||||+..+....
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            34678999999999999999987643

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.11  E-value=0.065  Score=45.50  Aligned_cols=27  Identities=15%  Similarity=0.234  Sum_probs=23.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+|.|.|+.|+||||+++.+.....
T Consensus        13 ~~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           13 KNLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            356999999999999999999988765

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=93.11  E-value=0.055  Score=47.39  Aligned_cols=24  Identities=38%  Similarity=0.354  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..|+++|.+|+|||||...+....
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999987653

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=93.10  E-value=0.0094  Score=50.87  Aligned_cols=25  Identities=28%  Similarity=0.284  Sum_probs=21.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +++|+|++|+|||||+..++.-...
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~~~~   53 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTALIP   53 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccccc
Confidence            5578999999999999999887654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.10  E-value=0.047  Score=45.10  Aligned_cols=25  Identities=32%  Similarity=0.210  Sum_probs=20.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .-.|.|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999887653

>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=93.08  E-value=0.049  Score=44.54  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987653

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.06  E-value=0.05  Score=45.13  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999987643

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=93.02  E-value=0.056  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ++.+|+|++|+|||||...++..
T Consensus        24 g~~~i~G~NGaGKTTll~ai~~a   46 (365)
T 3qf7_A           24 GITVVEGPNGAGKSSLFEAISFA   46 (365)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47889999999999999988643

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.01  E-value=0.18  Score=42.10  Aligned_cols=25  Identities=32%  Similarity=0.421  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..|+|=|..|+||||+++.+.....
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4789999999999999999999885

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=92.97  E-value=0.043  Score=45.07  Aligned_cols=24  Identities=33%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -.|+|+|.+|+|||||+..+.+..
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            368999999999999999987653

---

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	375
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-36

>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 =  130 bits (327), Expect = 6e-36
 Identities = 40/257 (15%), Positives = 84/257 (32%), Gaps = 30/257 (11%)

Query: 128 ESACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN--NIFDKVGIATVS 182
           E   +++I+ L +     +  + LHG  G GK+ +A    ++  Q     +D +     S
Sbjct: 26  EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 85

Query: 183 QDPSIINVQSELVKSLGWALTEK--------DEEDRADRLRLMFSESKSRKILVILDDVW 234
                          L     +                +  +  +       L + DDV 
Sbjct: 86  GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 145

Query: 235 KELDLETIGIPVGDRDNCCKILLTTRLQQVCYRMGCDPRI-KLDALDQAEGLDLLRKHAG 293
           +E  +         ++   + L+TTR  ++           ++ +L+  E  D L  +  
Sbjct: 146 QEETIRWA------QELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGM 199

Query: 294 IDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAKLDKIEGID 353
                +   DV  +  +   G P  +     +   +T ++     +KL++  L  +E I 
Sbjct: 200 PMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI- 258

Query: 354 KDSRGVYGCLKFSYDYL 370
                      +SY  L
Sbjct: 259 ---------TPYSYKSL 266

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	375
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.35
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.18
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.18
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.09
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.09
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.97
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.95
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.93
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.84
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.83
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.8
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.79
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.74
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.69
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.64
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.63
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.59
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.57
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.49
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.47
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.42
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.85
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.71
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.7
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.65
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.65
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.59
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.57
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.54
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.52
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.48
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.47
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.42
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.4
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.39
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.37
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.34
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.33
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.33
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.33
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.28
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.27
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.26
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.24
d1okkd2	207	GTPase domain of the signal recognition particle r	97.21
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.2
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.2
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.19
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.17
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.17
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.14
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.13
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.12
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.11
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.11
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.1
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.09
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.07
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.05
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.05
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.04
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.99
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.98
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.97
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.97
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.96
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.95
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.93
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.93
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.91
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.87
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.85
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.85
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.78
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.73
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.68
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.66
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.65
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.65
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.63
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.62
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.61
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.6
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.6
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.57
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.57
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.54
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.53
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.5
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.5
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.48
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.45
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.44
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.35
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.32
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.28
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.28
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.27
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.25
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.22
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.19
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.14
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.14
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.13
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.12
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.1
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.06
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.01
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.94
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.89
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.82
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.82
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.77
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.77
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.75
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.72
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.68
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.65
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.65
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.64
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.6
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.6
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.53
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.52
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.51
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.26
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.24
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.24
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.22
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.18
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.16
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.13
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.12
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.05
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.04
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.02
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.01
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.0
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.88
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.83
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.83
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.77
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.77
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.74
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.73
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.67
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.66
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.65
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.62
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.61
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.58
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.55
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.55
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.52
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.51
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.47
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.47
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.45
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.44
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.44
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.41
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.38
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.36
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.36
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.32
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.32
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.32
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.32
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.31
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.31
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.31
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.27
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.27
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.25
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.2
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.16
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.15
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.13
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.11
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.1
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.07
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.05
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.05
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.96
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.95
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.92
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.92
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.85
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.84
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.83
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.82
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.81
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.75
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.75
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.74
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.7
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.67
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.64
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.6
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.59
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.57
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.5
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.48
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.47
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.41
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.39
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.39
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.35
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.26
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.12
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.12
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.08
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.05
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.04
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.02
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	92.91
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.83
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.82
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.7
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.54
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	92.03
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.02
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.98
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.79
d1tuea_	205	Replication protein E1 helicase domain {Human papi	91.28
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	91.25
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	90.78
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.7
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.42
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.23
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	89.89
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	89.5
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.38
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.24
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	88.25
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	88.0
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	87.07
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.99
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	86.93
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.15
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	85.79
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	85.75
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	85.75
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	84.37
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	84.26
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	83.81
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	83.02
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	81.83
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	80.49
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	80.49
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	80.02

>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=100.00  E-value=3.5e-41  Score=301.26  Aligned_cols=232  Identities=17%  Similarity=0.104  Sum_probs=186.2

Q ss_pred             CccchHHHHHHHHHHHhc---CCCcEEEEEcCCCchHHHHHHHHHhhhh--hcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          123 SFETTESACNQIIEALKK---DSTKMVGLHGLGGVGKTTLAKFVGNQLR--QNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       123 ~~~gr~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      .++||+.++++|+++|..   .+.++|+|+||||+||||||+.+|++..  ...+|++++|+++++.++...+...+...
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~  100 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  100 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHH
Confidence            356999999999999843   4578999999999999999999998865  55789999999999988877666555443


Q ss_pred             ---hCCCCC------C--CCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChhHHh
Q 038205          198 ---LGWALT------E--KDEEDRADRLRLMFSESKSRKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQVCY  266 (375)
Q Consensus       198 ---l~~~~~------~--~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~v~~  266 (375)
                         ++....      .  .........+..   .+.++|+|+||||+|+..+|..+.      ..||+||||||+..++.
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNA---LIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHH---HTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHH---HhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHH
Confidence               332111      1  111222334455   889999999999999998887552      24789999999999998


Q ss_pred             hhCCC-CcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhhhcc
Q 038205          267 RMGCD-PRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIKAVGSALRLRTADEWNVALDKLQNAK  345 (375)
Q Consensus       267 ~~~~~-~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~i~~~L~~~~~~~w~~~l~~l~~~~  345 (375)
                      .+... +.|++++|+.+|||+||.++++.....+..++++++|+++|+|+||||+++|+.|+.++.++|.+..+.|....
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~  251 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRG  251 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHC
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCc
Confidence            76655 67999999999999999999886655666788999999999999999999999999999999999999887543


Q ss_pred             cCCCCCCCCCchhhhhhhhhhccCCCCC
Q 038205          346 LDKIEGIDKDSRGVYGCLKFSYDYLNGE  373 (375)
Q Consensus       346 ~~~~~~~~~~~~~~~~~l~~sy~~L~~~  373 (375)
                      .          .++..+|.+||++||++
T Consensus       252 ~----------~~v~~il~~sY~~L~~~  269 (277)
T d2a5yb3         252 L----------VGVECITPYSYKSLAMA  269 (277)
T ss_dssp             S----------STTCCCSSSSSSSHHHH
T ss_pred             H----------HHHHHHHHHHHhcccHH
Confidence            2          23777899999999964

>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=99.35  E-value=5.4e-13  Score=117.10  Aligned_cols=194  Identities=18%  Similarity=0.196  Sum_probs=112.6

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-----CCChhHHHHHH
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-----DPSIINVQSEL  194 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~i  194 (375)
                      ....|+||++++++|.+.    ..+.+.|+|++|+|||+|++.+.+.....     ..|+....     ......+...+
T Consensus        10 ~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~-----~~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLP-----YIYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCC-----EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCC-----eEEEEeccccccccccHHHHHHHH
Confidence            457899999999998763    45789999999999999999998776421     23443321     12233333333


Q ss_pred             HHHhC--------------CC-------------CCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcccc------cc
Q 038205          195 VKSLG--------------WA-------------LTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELDL------ET  241 (375)
Q Consensus       195 ~~~l~--------------~~-------------~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~~------~~  241 (375)
                      .....              ..             ............+.. +....++++++++|++......      ..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-l~~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLES-FEQASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHH-HHHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHH-HHhhcccccccccchhhhhcccchHHHHHH
Confidence            32211              00             000001112222222 2245678999999987543111      11


Q ss_pred             cCCCCCCCCCCcEEEEEeCChhHHhhhC------------CCCcccCCCCChHHHHHHHHHHcCC-CCCCCCchHHHHHH
Q 038205          242 IGIPVGDRDNCCKILLTTRLQQVCYRMG------------CDPRIKLDALDQAEGLDLLRKHAGI-DVADKTMTDVSKRV  308 (375)
Q Consensus       242 l~~~l~~~~~gs~IivTTr~~~v~~~~~------------~~~~~~l~~L~~~e~~~Lf~~~~~~-~~~~~~~~~~~~~i  308 (375)
                      +.... ........+++++.........            ....+.|.+++.+++.+++.+.+.. ....++    .++|
T Consensus       160 l~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i  234 (283)
T d2fnaa2         160 LAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVV  234 (283)
T ss_dssp             HHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHH
T ss_pred             HHHHH-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----HHHH
Confidence            11001 1123445666655543322111            1245789999999999999876531 111222    4689


Q ss_pred             HHHcCCchhHHHHHHHHhcC
Q 038205          309 ADECKGLPLAIKAVGSALRL  328 (375)
Q Consensus       309 ~~~~~glPlai~~i~~~L~~  328 (375)
                      ++.++|+|..+..++..+..
T Consensus       235 ~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         235 YEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHh
Confidence            99999999999999876653

>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=99.18  E-value=6.5e-11  Score=100.63  Aligned_cols=181  Identities=12%  Similarity=0.068  Sum_probs=111.1

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |..+..++|.++.++.|..|+..+..+.+.++||+|+||||+|+.+++..........+.-...+...+..... .... 
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~-~~~~-   87 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVR-NQIK-   87 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHH-THHH-
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeee-cchh-
Confidence            77788999999999999999988877778899999999999999999886543222222222222222221111 1111 


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCCh-hHHh-hhCCCCc
Q 038205          198 LGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQ-QVCY-RMGCDPR  273 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~-~v~~-~~~~~~~  273 (375)
                                     ..........+++-++|+|+++...  .-..+...+......+.++++|... .+.. .......
T Consensus        88 ---------------~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          88 ---------------DFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             ---------------HHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             ---------------hccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhh
Confidence                           0011001223455688999987542  1122222222234457777777653 2222 2333467


Q ss_pred             ccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch
Q 038205          274 IKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP  316 (375)
Q Consensus       274 ~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  316 (375)
                      +.+.+++.++...++.+.+..+.... -.+..+.|++.++|-.
T Consensus       153 i~~~~~~~~~i~~~l~~I~~~e~i~i-~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         153 FRFQPLPQEAIERRIANVLVHEKLKL-SPNAEKALIELSNGDM  194 (227)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCCB-CHHHHHHHHHHHTTCH
T ss_pred             hccccccccccccccccccccccccC-CHHHHHHHHHHcCCcH
Confidence            89999999999999988774332121 2466788999998853

>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=99.18  E-value=4.7e-11  Score=101.36  Aligned_cols=185  Identities=14%  Similarity=0.142  Sum_probs=113.3

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKS  197 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  197 (375)
                      |+.+..++|.++.++.|..|+..+..+.+.++||+|+||||+|+.+++.......-..+.-+..+...+...+...+...
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~   90 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHF   90 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHH
Confidence            77888999999999999999998887778899999999999999998876532111122333333333322222111111


Q ss_pred             hCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCC-hhHHh-hhCCCCc
Q 038205          198 LGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRL-QQVCY-RMGCDPR  273 (375)
Q Consensus       198 l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~-~~v~~-~~~~~~~  273 (375)
                      .                ........++.-++|+|+++...  ....+...+......++++++|.+ ..+.. ..+....
T Consensus        91 ~----------------~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          91 A----------------QKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             H----------------HBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             H----------------HhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            1                00000122356688999987542  222222222223344666666664 33322 2233467


Q ss_pred             ccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHH
Q 038205          274 IKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAI  319 (375)
Q Consensus       274 ~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  319 (375)
                      +++.+++.++....+.+.+..+.... ..+..+.|++.|+|-+-.+
T Consensus       155 i~~~~~~~~~i~~~l~~i~~~e~~~i-~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         155 LRYSKLSDEDVLKRLLQIIKLEDVKY-TNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCB-CHHHHHHHHHHHTTCHHHH
T ss_pred             hhhcccchhhhHHHHHHHHHhcccCC-CHHHHHHHHHHcCCcHHHH
Confidence            89999999999999988774222111 2466789999999987543

>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=99.09  E-value=1.1e-10  Score=99.35  Aligned_cols=181  Identities=14%  Similarity=0.079  Sum_probs=108.0

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccE-EEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDK-VGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.++.+++|..|+..+..+.+.++||+|+||||+|+.+.+..... .+.. .+-+..+...+... ......
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~-~~~~~~~e~n~s~~~~~~~-~~~~~~   97 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINV-IREKVK   97 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHT-THHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhc-ccCCCeeEEecCcccchhH-HHHHHH
Confidence            67788999999999999999998888889999999999999999998876431 1111 11222221100000 000000


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh-hHHhh-hCCCC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ-QVCYR-MGCDP  272 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~-~~~~~  272 (375)
                                      ...........++.++++||++..  ..+..+...+........+|+||... .+... .....
T Consensus        98 ----------------~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~  161 (231)
T d1iqpa2          98 ----------------EFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  161 (231)
T ss_dssp             ----------------HHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             ----------------HHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccc
Confidence                            000000022346778999998653  22222222222222334566665542 22222 22335


Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      .+.+.+.+.++....+++.+...... -..+..+.|++.|+|-+-
T Consensus       162 ~i~~~~~~~~~~~~~l~~~~~~e~i~-i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         162 IFRFRPLRDEDIAKRLRYIAENEGLE-LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCE-ECHHHHHHHHHHHTTCHH
T ss_pred             cccccccchhhHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHH
Confidence            78999999999999998887533221 124667889999988643

>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=99.09  E-value=7.5e-10  Score=94.69  Aligned_cols=197  Identities=17%  Similarity=0.158  Sum_probs=113.9

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|.++.++.|..++..+. ++.+.|+|++|+||||+|+.+.+.........       ............+..
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~-------~~~~~~~~~~~~i~~   80 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREIEQ   80 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC-------SSCCSCSHHHHHHHH
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccc-------cCccccchHHHHHHc
Confidence            6778889999999999999998766 45688999999999999999887764321110       001111111222222


Q ss_pred             HhCCC------CCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCChh-HHh
Q 038205          197 SLGWA------LTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQQ-VCY  266 (375)
Q Consensus       197 ~l~~~------~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~~-v~~  266 (375)
                      .-...      .+....+.....+..... ...++..++|||+++...  ....+...+......+++|++|.+.. +..
T Consensus        81 ~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~  160 (239)
T d1njfa_          81 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  160 (239)
T ss_dssp             TCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCH
T ss_pred             CCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccCh
Confidence            11000      001111222222221100 123456699999997642  22223222323345577887776532 222


Q ss_pred             h-hCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh-HHHHH
Q 038205          267 R-MGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL-AIKAV  322 (375)
Q Consensus       267 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~i  322 (375)
                      . .+....+.+.+++.++....+.+.+...... --.+..+.|++.++|.+- |+..+
T Consensus       161 ~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~-~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         161 TILSRCLQFHLKALDVEQIRHQLEHILNEEHIA-HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hHhhhhcccccccCcHHHhhhHHHHHHhhhccC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2 2333678999999999999888776422211 225667889999999885 55443

>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=99.08  E-value=1.3e-10  Score=99.33  Aligned_cols=196  Identities=15%  Similarity=0.151  Sum_probs=114.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcCC-ccEEEEEEecCCCChhHHHHHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNI-FDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      |..+..++|+++.++.|..++.....+.+.++||+|+||||+++.+++....... ......+..+...........+-.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            7778889999999999999998877777899999999999999999987642211 122233344443333322222211


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--cccccCCCCCCCCCCcEEEEEeCCh-hHH-hhhCCCC
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--DLETIGIPVGDRDNCCKILLTTRLQ-QVC-YRMGCDP  272 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~IivTTr~~-~v~-~~~~~~~  272 (375)
                      ...........    ..+..   ....+.-++|+|+++...  ....+...+......+.+|+|+... .+. .......
T Consensus        88 ~~~~~~~~~~~----~~~~~---~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          88 FARLTVSKPSK----HDLEN---YPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HHHSCCCCCCT----THHHH---SCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HhhhhhhhhhH----HHHhh---ccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            11111111111    11111   334455579999987542  2222222222223445677666542 221 1112225


Q ss_pred             cccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHH
Q 038205          273 RIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKA  321 (375)
Q Consensus       273 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~  321 (375)
                      .+++.+++.++...++.+.+....... ..+..+.|++.++|-+ -|+..
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~i~i-~~~~l~~ia~~s~gd~R~ai~~  209 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQENVKC-DDGVLERILDISAGDLRRGITL  209 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             hhccccccccccchhhhhhhhhhcCcC-CHHHHHHHHHHcCCCHHHHHHH
Confidence            789999999999999998775333222 2567789999998754 34443

>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=98.97  E-value=9.2e-10  Score=94.73  Aligned_cols=192  Identities=15%  Similarity=0.064  Sum_probs=101.5

Q ss_pred             CCCCCCccchHHHHHHHHHHHhcC-CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecC---------
Q 038205          118 PRFFSSFETTESACNQIIEALKKD-STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQ---------  183 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~---------  183 (375)
                      |..+..++|+++..+.|..++... ..+.+.|+||+|+||||+|+.+++......    .++...+.....         
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   86 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhcc
Confidence            667788999999999998887654 355678999999999999999988752211    111111111100         


Q ss_pred             ------------CCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCC
Q 038205          184 ------------DPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDR  249 (375)
Q Consensus       184 ------------~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~  249 (375)
                                  .......................        ........++.-++|||+++..  .....+...+...
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~  158 (252)
T d1sxje2          87 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDF--------QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  158 (252)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             CCccceeeecccccCCcceeeehhhhhhhhhhhhh--------hhcccccCCCceEEEeccccccccccchhhhcccccc
Confidence                        00111111111111110000000        0000022334558999999764  2222222222223


Q ss_pred             CCCcEEEEEeCChh-HHh-hhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          250 DNCCKILLTTRLQQ-VCY-RMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       250 ~~gs~IivTTr~~~-v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      ...+++|+||.+.+ +.. ..+....+++.+++.++..+++...+..........+..+.|++.+.|.+-
T Consensus       159 ~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         159 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLR  228 (252)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHH
T ss_pred             cccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHH
Confidence            34567777776532 211 122225688999999999999987653211111224566889999988764

>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=98.95  E-value=2.7e-08  Score=86.01  Aligned_cols=169  Identities=13%  Similarity=0.132  Sum_probs=106.4

Q ss_pred             CCccchHHHHHHHHHHHhc------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHH
Q 038205          122 SSFETTESACNQIIEALKK------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELV  195 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  195 (375)
                      ..++||+.++++|.++|..      ...+.+.|+|++|+||||+|+.+++.......+ ..+++..............+.
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhhhH
Confidence            4578999999999998853      235789999999999999999999988754333 345666667777888888888


Q ss_pred             HHhCCCCCC--CCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----cccccCCCCCC-CCCCcEEEEEeCChhHHhh
Q 038205          196 KSLGWALTE--KDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----DLETIGIPVGD-RDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       196 ~~l~~~~~~--~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----~~~~l~~~l~~-~~~gs~IivTTr~~~v~~~  267 (375)
                      ...+.....  .........+.... .-.....++++|++++..     ....+...... ......+|.++........
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  173 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHL-RERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  173 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHH-HHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHH-hhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhh
Confidence            887654322  23344444343311 123356677788776542     11222222111 1223455556655433221


Q ss_pred             h-------CCCCcccCCCCChHHHHHHHHHHc
Q 038205          268 M-------GCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       268 ~-------~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      .       .....+.+.+++.++..+++.+++
T Consensus       174 ~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         174 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             cchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            1       112457899999999999998765

>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=98.93  E-value=8.1e-09  Score=88.71  Aligned_cols=155  Identities=15%  Similarity=0.203  Sum_probs=98.8

Q ss_pred             CCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEE-EecCCCChhHHHHHHH
Q 038205          121 FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIA-TVSQDPSIINVQSELV  195 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv-~~~~~~~~~~~~~~i~  195 (375)
                      +.+.+||+++++++...|......-+.++|++|+|||+++..++.......    .....+|. +.+.-           
T Consensus        17 ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-----------   85 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-----------   85 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             CCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-----------
Confidence            457889999999999999877667778999999999999999988765432    12334444 22110           


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhc-CCCcEEEEEeCCCCcc----------cccccCCCCCCCCCCcEEEEEeCChhH
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSES-KSRKILVILDDVWKEL----------DLETIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l-~~kr~LlVlDdv~~~~----------~~~~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                        +...   ....+....+..++..+ ..+..+|++|++...-          +...+..+... ...-++|.||..++.
T Consensus        86 --iag~---~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey  159 (268)
T d1r6bx2          86 --LAGT---KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEF  159 (268)
T ss_dssp             ---CCC---CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHH
T ss_pred             --hccC---ccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHH
Confidence              0000   11122222233322244 4577999999986531          22223222222 335689999988877


Q ss_pred             HhhhCC-------CCcccCCCCChHHHHHHHHHHc
Q 038205          265 CYRMGC-------DPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       265 ~~~~~~-------~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ......       ...+.+...+.+++..++....
T Consensus       160 ~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         160 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            654432       2678999999999999997644

>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=98.84  E-value=1.3e-08  Score=82.71  Aligned_cols=151  Identities=13%  Similarity=0.180  Sum_probs=93.7

Q ss_pred             CCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhHHHHHHHH
Q 038205          121 FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIINVQSELVK  196 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~  196 (375)
                      +.+.+||+++++++...|......-+.++|++|+|||+++..++.+....+    ..+..+|.--     ..    .++.
T Consensus        21 ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld-----~~----~LiA   91 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD-----MG----ALVA   91 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC-----HH----HHHT
T ss_pred             CCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEee-----HH----HHhc
Confidence            467789999999999999876666788999999999999999988776422    2233444321     11    1111


Q ss_pred             HhCCCCCCCCHHHHHHHHHHHhhhc--CCCcEEEEEeCCCCcc---------cccccCCCCCCCCCCcEEEEEeCChhHH
Q 038205          197 SLGWALTEKDEEDRADRLRLMFSES--KSRKILVILDDVWKEL---------DLETIGIPVGDRDNCCKILLTTRLQQVC  265 (375)
Q Consensus       197 ~l~~~~~~~~~~~~~~~l~~~~~~l--~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~IivTTr~~~v~  265 (375)
                            ......+..+.+..++..+  ..++.+|++|++...-         +...+..+.. ....-++|.||..++..
T Consensus        92 ------g~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L-~rg~l~~IgatT~eey~  164 (195)
T d1jbka_          92 ------GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPAL-ARGELHCVGATTLDEYR  164 (195)
T ss_dssp             ------TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHH-HTTSCCEEEEECHHHHH
T ss_pred             ------cCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHH-hCCCceEEecCCHHHHH
Confidence                  1122334444555544444  3468999999986431         1111111111 12346788888877665


Q ss_pred             hhhC-------CCCcccCCCCChHHHHHH
Q 038205          266 YRMG-------CDPRIKLDALDQAEGLDL  287 (375)
Q Consensus       266 ~~~~-------~~~~~~l~~L~~~e~~~L  287 (375)
                      ....       ....+.+...+.+++..+
T Consensus       165 ~~~e~d~aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         165 QYIEKDAALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HHTTTCHHHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHHHcCHHHHhcCCEeecCCCCHHHHHHH
Confidence            4432       336788888888887654

>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=98.83  E-value=2.6e-07  Score=78.26  Aligned_cols=172  Identities=20%  Similarity=0.228  Sum_probs=100.7

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++|.++.+++|..++..     ...+.+.++||+|+||||+|+.+++.....     ...++.+.....     
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~-----~~~~~~~~~~~~-----   74 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN-----IHVTSGPVLVKQ-----   74 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC-----EEEEETTTCCSH-----
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC-----cccccCcccccH-----
Confidence            66778899999999999988742     235678899999999999999999887632     122332222111     


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCccc---------ccccC--C---------CCCCCCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKELD---------LETIG--I---------PVGDRDNC  252 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~~---------~~~l~--~---------~l~~~~~g  252 (375)
                                     .+....+.     ...++..+++|++.....         .+.-.  .         ......+.
T Consensus        75 ---------------~~~~~~~~-----~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (238)
T d1in4a2          75 ---------------GDMAAILT-----SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP  134 (238)
T ss_dssp             ---------------HHHHHHHH-----HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CC
T ss_pred             ---------------HHHHHHHH-----hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCC
Confidence                           11111111     123455667776653210         00000  0         00001223


Q ss_pred             cEEEEEeCCh-hH--HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          253 CKILLTTRLQ-QV--CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       253 s~IivTTr~~-~v--~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ..+|.+|.+. ..  .........+.+...+.++...++...+.... ..........|++.++|.+-.+.
T Consensus       135 ~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         135 FTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHH
T ss_pred             eEEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc-chhhHHHHHHHHHhCCCCHHHHH
Confidence            4555555543 22  11223335678999999999999988775332 22235668889999999876553

>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=98.80  E-value=5.7e-09  Score=89.73  Aligned_cols=191  Identities=15%  Similarity=0.066  Sum_probs=106.6

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----------------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEE
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----------------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIAT  180 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  180 (375)
                      |..+..++|.++.+++|.+++..                 ...+.+.++||+|+||||+|+.+++....     ...++.
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~-----~~~~~~   84 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQN   84 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-----hhhccc
Confidence            66778899999999999998742                 12468999999999999999999987652     234454


Q ss_pred             ecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc-----cccccCCCCCCCCCCcEE
Q 038205          181 VSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL-----DLETIGIPVGDRDNCCKI  255 (375)
Q Consensus       181 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~-----~~~~l~~~l~~~~~gs~I  255 (375)
                      .+...+...+ ................. .......   ...++..++++|++....     .+..+.....  .....+
T Consensus        85 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~i  157 (253)
T d1sxja2          85 ASDVRSKTLL-NAGVKNALDNMSVVGYF-KHNEEAQ---NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPL  157 (253)
T ss_dssp             TTSCCCHHHH-HHTGGGGTTBCCSTTTT-TC----C---CSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCE
T ss_pred             cccchhhHHH-HHHHHHHhhcchhhhhh-hhhhhcc---cccccceEEEeeeccccccchhhhhHHHhhhhc--cccccc
Confidence            4443333322 22222221111000000 0000011   345578899999876431     1111111110  111234


Q ss_pred             EEEeCC--h-hHHhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCch-hHHHH
Q 038205          256 LLTTRL--Q-QVCYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLP-LAIKA  321 (375)
Q Consensus       256 ivTTr~--~-~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~  321 (375)
                      ++|+..  . .+.........+++.+++.++....+...+..+....+ .+..+.|++.++|-. -|+..
T Consensus       158 i~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~-~~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         158 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD-PNVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC-TTHHHHHHHHTTTCHHHHHHH
T ss_pred             ccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC-HHHHHHHHHhCCCcHHHHHHH
Confidence            444332  2 22222333467899999999999998876631111111 235678999999966 44433

>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=98.79  E-value=9.5e-08  Score=79.31  Aligned_cols=182  Identities=9%  Similarity=-0.010  Sum_probs=102.7

Q ss_pred             chHHHHHHHHHHHhcCC-CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCC----
Q 038205          126 TTESACNQIIEALKKDS-TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGW----  200 (375)
Q Consensus       126 gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~----  200 (375)
                      ..+...+++...+..+. ++.+.++|++|+||||+|+.+++..--.....       ........-...+......    
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~-------~~~~~~~~~~~~i~~~~~~~~~~   78 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQG-------HKSCGHCRGCQLMQAGTHPDYYT   78 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT-------TBCCSCSHHHHHHHHTCCTTEEE
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccc-------cccccccchhhhhhhccccccch
Confidence            34567888888887776 55699999999999999999887653110000       0000000001111111100    


Q ss_pred             -----CCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCChh-HHhhh-CC
Q 038205          201 -----ALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQQ-VCYRM-GC  270 (375)
Q Consensus       201 -----~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~~-v~~~~-~~  270 (375)
                           .......++....+..+.. ...+++-++|+||++..  .....+...+.....++.+|+||++.. +...+ +.
T Consensus        79 ~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SR  158 (207)
T d1a5ta2          79 LAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSR  158 (207)
T ss_dssp             ECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTT
T ss_pred             hhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcce
Confidence                 0000111222222211100 23456779999999764  233333333333345678888877643 33322 33


Q ss_pred             CCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          271 DPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       271 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      -..+.+.+++.++....+.+....      .......|++.++|.|-.+.
T Consensus       159 c~~i~~~~~~~~~~~~~L~~~~~~------~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         159 CRLHYLAPPPEQYAVTWLSREVTM------SQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHCCC------CHHHHHHHHHHTTTCHHHHH
T ss_pred             eEEEecCCCCHHHHHHHHHHcCCC------CHHHHHHHHHHcCCCHHHHH
Confidence            368899999999999999876532      14667889999999886543

>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=98.74  E-value=5.4e-07  Score=76.33  Aligned_cols=173  Identities=16%  Similarity=0.142  Sum_probs=100.4

Q ss_pred             CCCCCCccchHHHHHHHHHHHhc-----CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHH
Q 038205          118 PRFFSSFETTESACNQIIEALKK-----DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQS  192 (375)
Q Consensus       118 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  192 (375)
                      |..+..++|.++.+++|..++..     ...+-+.++||+|+||||+|+.+++.....     ..+++.+....      
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~-----~~~~~~~~~~~------   73 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEK------   73 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC-----EEEEETTTCCS------
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----eEeccCCcccc------
Confidence            66778899999999998888742     235678899999999999999999876522     23333222111      


Q ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------cccc----cCCCCC-------CCCCC
Q 038205          193 ELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------DLET----IGIPVG-------DRDNC  252 (375)
Q Consensus       193 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~~~~----l~~~l~-------~~~~g  252 (375)
                                    .......+..   .+ +.+.++++|+++...         ..+.    ......       ...+.
T Consensus        74 --------------~~~~~~~~~~---~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~  135 (239)
T d1ixsb2          74 --------------PGDLAAILAN---SL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  135 (239)
T ss_dssp             --------------HHHHHHHHHT---TC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCC
T ss_pred             --------------chhhHHHHHh---hc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCC
Confidence                          1111112222   22 234456678765321         0000    000000       01223


Q ss_pred             cEEEEEeCCh-hH--HhhhCCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhHHH
Q 038205          253 CKILLTTRLQ-QV--CYRMGCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLAIK  320 (375)
Q Consensus       253 s~IivTTr~~-~v--~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  320 (375)
                      ..++.+|-+. ..  .........+.+...+.++...++.+.+.... .....+....|++.++|.+-.+.
T Consensus       136 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-i~~~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         136 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLG-VRITEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             CEEEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGC-CCBCHHHHHHHHHHTTSSHHHHH
T ss_pred             EEEEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhC-CccchHHHHHHHHHcCCCHHHHH
Confidence            3455444432 11  22233446788899999999998887765332 22235678899999999876553

>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=98.69  E-value=5.4e-07  Score=77.98  Aligned_cols=190  Identities=18%  Similarity=0.224  Sum_probs=109.2

Q ss_pred             CCccchHHHHHHHHHHHh----cC-C----CcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEALK----KD-S----TKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l~----~~-~----~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~  188 (375)
                      ..+.+|+.++++|.+++.    .+ .    ..++.++||+|+|||++++.+++.....    .......++.........
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            467899999999988762    11 1    1245678999999999999999886431    122345677777777788


Q ss_pred             HHHHHHHHHhCCCCC--CCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc--------c---cccc---CCCCCCCCCC
Q 038205          189 NVQSELVKSLGWALT--EKDEEDRADRLRLMFSESKSRKILVILDDVWKEL--------D---LETI---GIPVGDRDNC  252 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~--~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~--------~---~~~l---~~~l~~~~~g  252 (375)
                      .........++....  ..........+.... .-.+...++++|.++...        .   +..+   ..........
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  174 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQVRGAPALDILKALVDNL-YVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  174 (287)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHH-HHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             hHHHHHhhhcccccccccchHHHHHHHHHHHH-HhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccce
Confidence            888888877765432  233334444444311 124467788888775321        1   1111   1111112222


Q ss_pred             cEEEEEeCChhHHh--------hhCCCCcccCCCCChHHHHHHHHHHcCCC-CCCCCchHHHHHHHHHc
Q 038205          253 CKILLTTRLQQVCY--------RMGCDPRIKLDALDQAEGLDLLRKHAGID-VADKTMTDVSKRVADEC  312 (375)
Q Consensus       253 s~IivTTr~~~v~~--------~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~-~~~~~~~~~~~~i~~~~  312 (375)
                      ..|++++.......        .......+.+.+++.++..+++..++... ....-..+..+.|+++.
T Consensus       175 ~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         175 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHH
Confidence            33444544432211        11223578899999999999999876310 11111245556666654

>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=98.64  E-value=3e-07  Score=78.25  Aligned_cols=173  Identities=23%  Similarity=0.257  Sum_probs=95.2

Q ss_pred             CCCCccchHHHHHHHHHHH---hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEAL---KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+...+|-++..+.|.+.+   ..         ..++-+.++||+|+|||+||+.+++.....     .+-+..      
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~-----~~~i~~------   75 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP-----FITASG------   75 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC-----EEEEEH------
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC-----EEEEEh------
Confidence            4566778777766655432   21         224679999999999999999999876521     122221      


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhh-hcCCCcEEEEEeCCCCcc----------------cccccCCCCC--C
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFS-ESKSRKILVILDDVWKEL----------------DLETIGIPVG--D  248 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~-~l~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~  248 (375)
                      ..    +...    ...    +....+++++. .-...+++|+|||++...                .+..+...+.  .
T Consensus        76 ~~----l~~~----~~g----~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~  143 (247)
T d1ixza_          76 SD----FVEM----FVG----VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  143 (247)
T ss_dssp             HH----HHHS----CTT----HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             HH----hhhc----ccc----HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC
Confidence            11    1111    011    11122333333 345688999999975210                0111111111  1


Q ss_pred             CCCCcEEEEEeCChhHH-hhh----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          249 RDNCCKILLTTRLQQVC-YRM----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       249 ~~~gs~IivTTr~~~v~-~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      ...+.-||.||...... ..+    .-...+.+.+.+.++-.++|+.+........+.  ....+++.|.|+.-
T Consensus       144 ~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~--~~~~la~~t~g~s~  215 (247)
T d1ixza_         144 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFVG  215 (247)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCH
T ss_pred             CCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCcccc--CHHHHHHHCCCCCH
Confidence            22233344466653322 222    223678999999999999999887533222221  14567788888644

>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=98.63  E-value=1.2e-06  Score=74.81  Aligned_cols=175  Identities=16%  Similarity=0.152  Sum_probs=99.1

Q ss_pred             CCCCccchHHHHHHHHHH---Hhc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh
Q 038205          120 FFSSFETTESACNQIIEA---LKK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~---l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  187 (375)
                      .+....|.++..++|.+.   +..         ..++.+.++||+|+|||++|+.+++.....     .+-+..+.-.  
T Consensus        10 t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~-----~~~i~~~~l~--   82 (256)
T d1lv7a_          10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP-----FFTISGSDFV--   82 (256)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC-----EEEECSCSST--
T ss_pred             CHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC-----EEEEEhHHhh--
Confidence            345677887777766553   321         235678999999999999999999877522     1122221110  


Q ss_pred             hHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCc------------cc----ccccCCCCC--CC
Q 038205          188 INVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKE------------LD----LETIGIPVG--DR  249 (375)
Q Consensus       188 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~------------~~----~~~l~~~l~--~~  249 (375)
                                  ......+...+...+..   +-...+++|++||++..            ..    +..+...+.  ..
T Consensus        83 ------------~~~~g~~~~~l~~~f~~---A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          83 ------------EMFVGVGASRVRDMFEQ---AKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             ------------TSCCCCCHHHHHHHHHH---HHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             ------------hcchhHHHHHHHHHHHH---HHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence                        01112223333333333   44668899999998521            00    111111111  12


Q ss_pred             CCCcEEEEEeCChhHH-hhh----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          250 DNCCKILLTTRLQQVC-YRM----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       250 ~~gs~IivTTr~~~v~-~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      ..+.-||.||...... ..+    .-.+.+.+.+.+.++-.++|+.+.......++.  ....+++.+.|+.-|
T Consensus       148 ~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~--~~~~la~~t~G~s~a  219 (256)
T d1lv7a_         148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSGA  219 (256)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHH
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCccc--CHHHHHHhCCCCCHH
Confidence            3344566677754332 212    223678999999999999999887533222221  135677888887543

>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=98.59  E-value=4.1e-07  Score=78.03  Aligned_cols=172  Identities=15%  Similarity=0.138  Sum_probs=97.8

Q ss_pred             CCccchHHHHHHHHHHH----hc---------CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChh
Q 038205          122 SSFETTESACNQIIEAL----KK---------DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSII  188 (375)
Q Consensus       122 ~~~~gr~~~~~~l~~~l----~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  188 (375)
                      ....|-++.+++|.+.+    ..         ..++-+.++||+|+|||++|+.+.+.....     .+.+..+      
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~------   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGP------   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHH------
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEch------
Confidence            45567777777776653    21         235679999999999999999999976532     1222111      


Q ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCCCcEEEEEeCCCCcc---------c----ccccCCC--CCCCCCCc
Q 038205          189 NVQSELVKSLGWALTEKDEEDRADRLRLMFSESKSRKILVILDDVWKEL---------D----LETIGIP--VGDRDNCC  253 (375)
Q Consensus       189 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~kr~LlVlDdv~~~~---------~----~~~l~~~--l~~~~~gs  253 (375)
                              .+...............+..   +-..++++|++||++...         .    ...+...  ......+.
T Consensus        73 --------~l~~~~~g~~~~~l~~~f~~---A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~v  141 (258)
T d1e32a2          73 --------EIMSKLAGESESNLRKAFEE---AEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  141 (258)
T ss_dssp             --------HHTTSCTTHHHHHHHHHHHH---HHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCE
T ss_pred             --------hhcccccccHHHHHHHHHHH---HHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCc
Confidence                    01111111111222222222   445689999999986431         0    0111100  11233445


Q ss_pred             EEEEEeCChhHHhh-h----CCCCcccCCCCChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchh
Q 038205          254 KILLTTRLQQVCYR-M----GCDPRIKLDALDQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPL  317 (375)
Q Consensus       254 ~IivTTr~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  317 (375)
                      -||.||........ +    .....+.+...+.++-..+|+.+.......++..  ...|++.+.|+-.
T Consensus       142 lvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~--~~~la~~t~G~s~  208 (258)
T d1e32a2         142 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD--LEQVANETHGHVG  208 (258)
T ss_dssp             EEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC--HHHHHHHCTTCCH
T ss_pred             cEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc--hhhhhhcccCCCH
Confidence            56668876543221 1    2337889999999999999998875332222211  4678899988644

>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=98.57  E-value=4.8e-07  Score=81.79  Aligned_cols=155  Identities=15%  Similarity=0.213  Sum_probs=89.6

Q ss_pred             CCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEE-ecCCCChhHHHHHHH
Q 038205          121 FSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIAT-VSQDPSIINVQSELV  195 (375)
Q Consensus       121 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~-~~~~~~~~~~~~~i~  195 (375)
                      +.+.+||+.++++++..|......-+.++|++|+|||+++..++.+....    ...+.++|.- ++.          ++
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~----------l~   90 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS----------LL   90 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh----------hh
Confidence            46788999999999999976655556788999999999998887765432    2334455543 221          10


Q ss_pred             HHhCCCCCCCCHHHHHHHHHHHhhhc-C-CCcEEEEEeCCCCcc---------cccccCCCCCCCCCCcEEEEEeCChhH
Q 038205          196 KSLGWALTEKDEEDRADRLRLMFSES-K-SRKILVILDDVWKEL---------DLETIGIPVGDRDNCCKILLTTRLQQV  264 (375)
Q Consensus       196 ~~l~~~~~~~~~~~~~~~l~~~~~~l-~-~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~IivTTr~~~v  264 (375)
                      ...      ....+....+..++..+ . ..+++|++|++...-         +...+..+.. ....-++|-+|..+..
T Consensus        91 ag~------~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L-~rg~~~~I~~tT~~ey  163 (387)
T d1qvra2          91 AGA------KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-ARGELRLIGATTLDEY  163 (387)
T ss_dssp             -------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-HTTCCCEEEEECHHHH
T ss_pred             ccc------CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHH-hCCCcceeeecCHHHH
Confidence            000      00112222333322233 2 357999999987541         1111111111 1234578888877666


Q ss_pred             Hhh------hCCCCcccCCCCChHHHHHHHHHHc
Q 038205          265 CYR------MGCDPRIKLDALDQAEGLDLLRKHA  292 (375)
Q Consensus       265 ~~~------~~~~~~~~l~~L~~~e~~~Lf~~~~  292 (375)
                      ...      ......+.+...+.+++..++....
T Consensus       164 ~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         164 REIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            432      1223678999999999999998654

>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=98.49  E-value=4.2e-06  Score=70.95  Aligned_cols=26  Identities=31%  Similarity=0.249  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+-|.++||+|+|||++|+.+++...
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~~   65 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEESN   65 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhccc
Confidence            45689999999999999999998765

>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=98.47  E-value=2.2e-07  Score=80.04  Aligned_cols=152  Identities=17%  Similarity=0.168  Sum_probs=83.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESK  222 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~  222 (375)
                      .+-|.++|++|+|||+||+.+++.....       ++.++    ...+    .    ..............+..   +-.
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~-------~~~~~----~~~l----~----~~~~~~~~~~l~~~f~~---A~~   98 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIK----GPEL----L----TMWFGESEANVREIFDK---ARQ   98 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE-------EEEEC----HHHH----H----TSCTTTHHHHHHHHHHH---HHH
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc-------EEEEE----HHHh----h----hccccchHHHHHHHHHH---HHh
Confidence            5678999999999999999999987632       12221    1111    1    01111122222233333   445


Q ss_pred             CCcEEEEEeCCCCcc--------c--------ccccCCCCCC--CCCCcEEEEEeCChhHH-hhh----CCCCcccCCCC
Q 038205          223 SRKILVILDDVWKEL--------D--------LETIGIPVGD--RDNCCKILLTTRLQQVC-YRM----GCDPRIKLDAL  279 (375)
Q Consensus       223 ~kr~LlVlDdv~~~~--------~--------~~~l~~~l~~--~~~gs~IivTTr~~~v~-~~~----~~~~~~~l~~L  279 (375)
                      ..+++|+|||++...        +        ...+...+..  ..++.-||.||...+-. ..+    .....+++++.
T Consensus        99 ~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p  178 (265)
T d1r7ra3          99 AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP  178 (265)
T ss_dssp             TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCC
T ss_pred             cCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecch
Confidence            678999999986321        0        1112112211  22345566677654322 212    22367899999


Q ss_pred             ChHHHHHHHHHHcCCCCCCCCchHHHHHHHHHcCCchhH
Q 038205          280 DQAEGLDLLRKHAGIDVADKTMTDVSKRVADECKGLPLA  318 (375)
Q Consensus       280 ~~~e~~~Lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  318 (375)
                      +.++-.++|+.++.......+.  ....|++++.|+..+
T Consensus       179 ~~~~R~~il~~~l~~~~~~~~~--~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         179 DEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSGA  215 (265)
T ss_dssp             CCHHHHHHHHHHTTCC----CC--CCHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHHhccCCchhhh--hHHHHHhcCCCCCHH
Confidence            9999999999877532211111  135677788887654

>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=98.42  E-value=8.8e-07  Score=73.54  Aligned_cols=142  Identities=18%  Similarity=0.166  Sum_probs=81.1

Q ss_pred             HHHHHHHHhcCC--CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHH
Q 038205          131 CNQIIEALKKDS--TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEE  208 (375)
Q Consensus       131 ~~~l~~~l~~~~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~  208 (375)
                      ...+.++....+  ...+.|+|++|+|||.|++.+++......  ..+++++.      ......+...+..    ....
T Consensus        22 ~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~--~~~~~~~~------~~~~~~~~~~~~~----~~~~   89 (213)
T d1l8qa2          22 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRG--YRVIYSSA------DDFAQAMVEHLKK----GTIN   89 (213)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTT--CCEEEEEH------HHHHHHHHHHHHH----TCHH
T ss_pred             HHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCc--cceEEech------HHHHHHHHHHHHc----cchh
Confidence            344444444333  23478999999999999999999987542  34455532      3344444443311    1111


Q ss_pred             HHHHHHHHHhhhcCCCcEEEEEeCCCCc---ccccc-cCCCCCC-CCCCcEEEEEeCC---------hhHHhhhCCCCcc
Q 038205          209 DRADRLRLMFSESKSRKILVILDDVWKE---LDLET-IGIPVGD-RDNCCKILLTTRL---------QQVCYRMGCDPRI  274 (375)
Q Consensus       209 ~~~~~l~~~~~~l~~kr~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~IivTTr~---------~~v~~~~~~~~~~  274 (375)
                      +..+       .+. .--+|++||++..   ..|+. +...+.. ...|.+||+||+.         +++..++....++
T Consensus        90 ~~~~-------~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~  161 (213)
T d1l8qa2          90 EFRN-------MYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILV  161 (213)
T ss_dssp             HHHH-------HHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEE
T ss_pred             hHHH-------HHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEE
Confidence            1111       222 3458999999743   23433 2111111 2356789999985         3344455556667


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 038205          275 KLDALDQAEGLDLLRKHAG  293 (375)
Q Consensus       275 ~l~~L~~~e~~~Lf~~~~~  293 (375)
                      .++ ++.++-.+++++.+.
T Consensus       162 ~i~-p~d~~~~~iL~~~a~  179 (213)
T d1l8qa2         162 EIE-LDNKTRFKIIKEKLK  179 (213)
T ss_dssp             ECC-CCHHHHHHHHHHHHH
T ss_pred             EEC-CCcHHHHHHHHHHHH
Confidence            775 467777777777764

>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=97.85  E-value=2.6e-05  Score=63.55  Aligned_cols=129  Identities=11%  Similarity=0.029  Sum_probs=72.0

Q ss_pred             HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc--CCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHH
Q 038205          131 CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN--NIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEE  208 (375)
Q Consensus       131 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~  208 (375)
                      ++.+.+++..+.+..+.++|++|+||||+|..+.+.....  .|.+ ..++.-....--.+-.+++.+.+...       
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR~i~~~~~~~-------   74 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIRTIKDFLNYS-------   74 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHHHHHHHHTSC-------
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHHHHHHHHhhC-------
Confidence            4556666777788999999999999999999998866532  2222 33443211110112222333333211       


Q ss_pred             HHHHHHHHHhhhcCCCcEEEEEeCCCCc--ccccccCCCCCCCCCCcEEEEEeCCh-hHHhhhCC-CCcccCCC
Q 038205          209 DRADRLRLMFSESKSRKILVILDDVWKE--LDLETIGIPVGDRDNCCKILLTTRLQ-QVCYRMGC-DPRIKLDA  278 (375)
Q Consensus       209 ~~~~~l~~~~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~IivTTr~~-~v~~~~~~-~~~~~l~~  278 (375)
                                 ...+++-++|+|+++..  .....+...+..-..++.+|++|.+. .+...... -..+.+.+
T Consensus        75 -----------~~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          75 -----------PELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             -----------CSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             -----------cccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCC
Confidence                       22355669999999754  34444443343333567777776653 33333222 23455553

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.71  E-value=6.2e-05  Score=64.63  Aligned_cols=28  Identities=29%  Similarity=0.483  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.+......
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCcC
Confidence            4679999999999999999999887654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.70  E-value=6.2e-05  Score=62.40  Aligned_cols=28  Identities=25%  Similarity=0.480  Sum_probs=23.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~gl~~   56 (230)
T d1l2ta_          29 KEGEFVSIMGPSGSGKSTMLNIIGCLDK   56 (230)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCcchhhHhccCCCC
Confidence            3567999999999999999999876544

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.65  E-value=1.3e-05  Score=66.74  Aligned_cols=28  Identities=25%  Similarity=0.406  Sum_probs=23.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+..+++|+|++|+|||||++.+..-.+
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            3567999999999999999999976554

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.65  E-value=4.4e-05  Score=63.61  Aligned_cols=28  Identities=25%  Similarity=0.373  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.+..-.+
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3567999999999999999999977654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=97.59  E-value=8.5e-05  Score=61.90  Aligned_cols=27  Identities=26%  Similarity=0.363  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||++.++.-.+
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            467999999999999999999977654

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=97.57  E-value=3.3e-05  Score=64.48  Aligned_cols=28  Identities=32%  Similarity=0.488  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.++.-.+
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            3567999999999999999999976654

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.54  E-value=1.4e-05  Score=67.22  Aligned_cols=28  Identities=18%  Similarity=0.404  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .....++|+|++|+|||||++.+..-.+
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            3567999999999999999999976554

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.52  E-value=3.5e-05  Score=64.29  Aligned_cols=28  Identities=25%  Similarity=0.444  Sum_probs=24.1

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        29 ~~Ge~~~iiG~sGsGKSTll~~i~gl~~   56 (242)
T d1oxxk2          29 ENGERFGILGPSGAGKTTFMRIIAGLDV   56 (242)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcCcC
Confidence            3567999999999999999999977554

>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=97.48  E-value=3.3e-05  Score=60.81  Aligned_cols=28  Identities=29%  Similarity=0.329  Sum_probs=24.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .++++|+|++|+|||||+..+.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            3689999999999999999999887654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=2e-05  Score=66.05  Aligned_cols=27  Identities=30%  Similarity=0.541  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....++|+|++|+|||||++.+..-..
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            457999999999999999999987654

>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=97.42  E-value=3.8e-05  Score=61.35  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.|+|.|++|+||||||+.+.....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999998764

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=7e-05  Score=63.16  Aligned_cols=28  Identities=29%  Similarity=0.462  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            4567999999999999999999976654

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.39  E-value=2.8e-05  Score=65.81  Aligned_cols=28  Identities=32%  Similarity=0.462  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            3567999999999999999999976654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.37  E-value=0.00011  Score=59.87  Aligned_cols=59  Identities=17%  Similarity=0.170  Sum_probs=37.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCCh--hHHHHHHHHHhCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSI--INVQSELVKSLGWAL  202 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~  202 (375)
                      ..+.+|.++|+.|+||||.+..++...+..+   ..+.+.....+..  .+-++...+.++.+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g---~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   67 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQG---KSVMLAAGDTFRAAAVEQLQVWGQRNNIPV   67 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTT---CCEEEECCCTTCHHHHHHHHHHHHHTTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CcEEEEecccccccchhhhhhhhhhcCCcc
Confidence            3467999999999999998887777766332   2233333333333  455566667766543

>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=97.34  E-value=6e-05  Score=59.79  Aligned_cols=28  Identities=25%  Similarity=0.250  Sum_probs=25.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ++.+|.|+|++|+||||+|+.+...+..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4578999999999999999999988864

>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=97.33  E-value=4.6e-05  Score=59.42  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|+||+|+||||+|+.+.....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688899999999999999999875

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.33  E-value=2.5e-05  Score=66.00  Aligned_cols=28  Identities=25%  Similarity=0.453  Sum_probs=23.6

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .....++|+|++|+|||||++.+..-..
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            4567999999999999999998865544

>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=97.33  E-value=0.00012  Score=59.02  Aligned_cols=31  Identities=35%  Similarity=0.576  Sum_probs=26.0

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ..++-+|+|.|++|+||||||+.+.......
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            3455689999999999999999998887753

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=8.6e-05  Score=59.02  Aligned_cols=27  Identities=41%  Similarity=0.482  Sum_probs=23.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +.|.|+|++|+|||||++.+.......
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            568999999999999999999887643

>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=97.27  E-value=6.4e-05  Score=60.82  Aligned_cols=29  Identities=24%  Similarity=0.223  Sum_probs=25.2

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+.+|.|+|++|+||||+|+.++....
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            34577999999999999999999998764

>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=97.26  E-value=7.1e-05  Score=57.78  Aligned_cols=24  Identities=29%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            478899999999999999886543

>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=97.24  E-value=7.2e-05  Score=58.87  Aligned_cols=25  Identities=40%  Similarity=0.522  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ++|.|.|++|+||||+|+.+.....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999987654

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.21  E-value=0.00034  Score=56.87  Aligned_cols=59  Identities=25%  Similarity=0.205  Sum_probs=40.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA  201 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  201 (375)
                      +++++|.++|+.|+||||.+..++......+  ..+..++... .....+-++...+.++.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhcccccCce
Confidence            4568999999999999998888877766432  3455555442 345556666777777654

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.20  E-value=0.0011  Score=53.87  Aligned_cols=58  Identities=21%  Similarity=0.183  Sum_probs=36.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA  201 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  201 (375)
                      +.++|.++|++|+||||.+..++.....++ . .+..++... .....+-++...+.++.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g-~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG-R-RPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT-C-CEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEecccccchHHHHHHHHHHhcCCc
Confidence            457899999999999998888877766432 2 344444321 123334555555655543

>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=97.20  E-value=8e-05  Score=58.63  Aligned_cols=25  Identities=40%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|.|++|+||||+|+.+.....
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999988764

>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=97.19  E-value=0.0001  Score=57.92  Aligned_cols=28  Identities=32%  Similarity=0.490  Sum_probs=24.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++.|.|++|+||||+|+.+.....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568999999999999999999988764

>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=97.17  E-value=0.001  Score=56.26  Aligned_cols=94  Identities=19%  Similarity=0.225  Sum_probs=58.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC----C---------CCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW----A---------LTEKD  206 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~----~---------~~~~~  206 (375)
                      ...+.++|.|.+|+|||+|+..+.+.... .+-+.++++-+.+.. ...++.+++.+.--.    .         ....+
T Consensus        66 gkGQr~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~  144 (276)
T d2jdid3          66 AKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEP  144 (276)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSC
T ss_pred             cCCCEEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCC
Confidence            45678999999999999999999877432 223456777777654 455666666653110    0         01122


Q ss_pred             H-H-----HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          207 E-E-----DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       207 ~-~-----~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      . .     ...-.+.+++..-+++.+|+++||+..
T Consensus       145 ~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         145 PGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence            1 1     122334454434458999999999854

>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=97.17  E-value=0.00016  Score=56.75  Aligned_cols=28  Identities=21%  Similarity=0.132  Sum_probs=25.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      ++++|+|..|+|||||+..+...++.++
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g   29 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREG   29 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCC
Confidence            6899999999999999999999887653

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.14  E-value=0.00011  Score=58.37  Aligned_cols=25  Identities=40%  Similarity=0.499  Sum_probs=22.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      -|+|+|++|+|||||++.+......
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3899999999999999999987764

>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=97.13  E-value=0.00013  Score=57.61  Aligned_cols=26  Identities=27%  Similarity=0.446  Sum_probs=23.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|.|.|++|+||||+|+.+.....
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            47899999999999999999998765

>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=97.12  E-value=0.0007  Score=58.92  Aligned_cols=44  Identities=27%  Similarity=0.345  Sum_probs=33.0

Q ss_pred             ccchHHHHHHHHHHHh-------cC-C-CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          124 FETTESACNQIIEALK-------KD-S-TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~-------~~-~-~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+|.++.++.+...+.       ++ . ..++.++||+|+|||.+|+.+....
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            4577777777766552       11 2 2378899999999999999998876

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.11  E-value=0.00062  Score=54.66  Aligned_cols=26  Identities=23%  Similarity=0.165  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.+|.|.|++|+||||+|+.++....
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999998764

>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=97.11  E-value=0.00014  Score=57.27  Aligned_cols=28  Identities=25%  Similarity=0.430  Sum_probs=23.9

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +....|.|.|++|+||||+|+.+.....
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            3456799999999999999999998764

>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=97.10  E-value=0.0001  Score=59.39  Aligned_cols=27  Identities=37%  Similarity=0.373  Sum_probs=24.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+|.++|++|+||||+|+.+......
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            568899999999999999999988764

>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=97.09  E-value=0.00012  Score=59.17  Aligned_cols=28  Identities=21%  Similarity=0.236  Sum_probs=25.0

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..++|.|.|++|+||||+|+.++....
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999999988764

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.07  E-value=0.00017  Score=57.37  Aligned_cols=27  Identities=37%  Similarity=0.593  Sum_probs=24.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ++|+|.|++|+||||+++.+.......
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999887643

>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=97.05  E-value=0.00013  Score=57.51  Aligned_cols=27  Identities=30%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|.|.|++|+||||+|+.+.....
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg   29 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPG   29 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999987654

>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=97.05  E-value=0.0014  Score=55.39  Aligned_cols=84  Identities=18%  Similarity=0.222  Sum_probs=58.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALT------EKDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+||||||..++......+  ..++|+.....++..     ++++++.+.+      ..+.++..+.+.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            467999999999999999998887765433  357888888777763     6677776533      234455555554


Q ss_pred             HHhhhcC-CCcEEEEEeCCCC
Q 038205          216 LMFSESK-SRKILVILDDVWK  235 (375)
Q Consensus       216 ~~~~~l~-~kr~LlVlDdv~~  235 (375)
                      .   ... +..-|+|+|.+..
T Consensus       129 ~---l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         129 L---LVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             H---HHTTTCCSEEEEECTTT
T ss_pred             H---HHhcCCCcEEEEecccc
Confidence            4   232 3456999998854

>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=97.04  E-value=0.00027  Score=60.00  Aligned_cols=27  Identities=30%  Similarity=0.306  Sum_probs=24.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+..|.++||+|+||||||+.+++...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            356789999999999999999999775

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.99  E-value=0.00036  Score=60.78  Aligned_cols=45  Identities=24%  Similarity=0.276  Sum_probs=33.8

Q ss_pred             ccchHHHHHHHHHHHh--------------cCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALK--------------KDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~--------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++.++.+...+.              ...++-+.++||+|+|||.||+.+++...
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            4677877777765441              11356788999999999999999998754

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.98  E-value=0.00048  Score=58.64  Aligned_cols=99  Identities=10%  Similarity=0.141  Sum_probs=55.0

Q ss_pred             HHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCC----CCCCCCH
Q 038205          133 QIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGW----ALTEKDE  207 (375)
Q Consensus       133 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~----~~~~~~~  207 (375)
                      ++++.+.. ...+.++|.|++|+|||+|+..+.+.....+.-..++...+.....   -..++......    .....+.
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~~---ev~~~~~~~~~~vv~~t~d~~~  108 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPE---EVTEMQRLVKGEVVASTFDEPA  108 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECHH---HHHHHHHHCSSEEEEEETTSCH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeeceeHH---HHHhHHhhcceEEEeccCCCch
Confidence            45666543 5678999999999999999999988776432222223233333221   22222222211    1111121


Q ss_pred             H------HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 E------DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ~------~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      .      .....+.+++.. +++.+||++||+..
T Consensus       109 ~~r~~~~~~a~~iAEyfrd-~G~dVLli~Dsltr  141 (289)
T d1xpua3         109 SRHVQVAEMVIEKAKRLVE-HKKDVIILLDSITR  141 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHT-TTCEEEEEESCHHH
T ss_pred             hHHHHHHHHHHHHHHHHHH-hccCceeecCcHHH
Confidence            1      122334444433 57999999999753

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.97  E-value=0.0002  Score=56.63  Aligned_cols=27  Identities=22%  Similarity=0.208  Sum_probs=23.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.+.+|.++|++|+||||+|+.+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            457899999999999999999886643

>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=96.97  E-value=0.0031  Score=53.18  Aligned_cols=86  Identities=15%  Similarity=0.154  Sum_probs=58.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCC------CCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTE------KDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+||||+|..++......+  ..++|+.....++...     +++++.+.+.      .+.++..+.+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            468999999999999999988877665443  3578998888777543     5556654332      34455555444


Q ss_pred             HHhhhcCCCcEEEEEeCCCCc
Q 038205          216 LMFSESKSRKILVILDDVWKE  236 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~~~  236 (375)
                      .+.  -.++..|||+|.+...
T Consensus       132 ~l~--~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         132 MLI--RSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHH--HTTCEEEEEEECSTTC
T ss_pred             HHH--hcCCCCEEEEeccccc
Confidence            421  1346779999988543

>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=96.96  E-value=0.0011  Score=53.87  Aligned_cols=58  Identities=24%  Similarity=0.389  Sum_probs=32.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA  201 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  201 (375)
                      .+.+|.++||.|+||||.+..++...+.++ . .+..++... .....+-++...+.++.+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKG-F-KVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTT-C-CEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCC-C-ceEEEEeeccccchhHHHHHhccccCcc
Confidence            468999999999999998777777666432 2 345554432 123334455555666544

>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=96.95  E-value=0.0013  Score=53.41  Aligned_cols=59  Identities=17%  Similarity=0.219  Sum_probs=39.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecC-CCChhHHHHHHHHHhCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQ-DPSIINVQSELVKSLGWA  201 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  201 (375)
                      ..+.+|.++|+.|+||||.+..++.....++  ..+..++... .....+-++...+.++.+
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   68 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIWGERVGAT   68 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHHhhhcCcc
Confidence            3567999999999999998777777765432  3455555442 223445566666777654

>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=96.93  E-value=0.00024  Score=58.43  Aligned_cols=26  Identities=31%  Similarity=0.553  Sum_probs=24.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|+|.||+|+||||+|+.+.+++.
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            36999999999999999999999886

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.93  E-value=0.00019  Score=56.26  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=20.2

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |.++|++|+||||+++.++....
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45669999999999999998876

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.91  E-value=0.00023  Score=55.67  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=21.2

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |.|+||+|+||||+++.++....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999999885

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.87  E-value=0.00027  Score=57.54  Aligned_cols=27  Identities=26%  Similarity=0.326  Sum_probs=23.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +.+|.++|.+|+||||+|+.+......
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            357899999999999999999987764

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.85  E-value=0.00026  Score=55.75  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.++|++|+||||+++.++....
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            466889999999999999998876

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.85  E-value=0.00081  Score=58.27  Aligned_cols=30  Identities=33%  Similarity=0.512  Sum_probs=23.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIF  173 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f  173 (375)
                      .++.++|++|+|||.||+.++........|
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~  153 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKY  153 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCC
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCe
Confidence            456668999999999999999987643333

>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=0.00032  Score=56.23  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=22.8

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +..|.|.|++|+||||+|+.+.+...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            45688999999999999999988774

>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=96.73  E-value=0.007  Score=53.36  Aligned_cols=29  Identities=24%  Similarity=0.096  Sum_probs=25.4

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +..+.+.++||+|+|||++|..+++....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            44579999999999999999999998763

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.68  E-value=0.00048  Score=56.32  Aligned_cols=27  Identities=22%  Similarity=0.341  Sum_probs=23.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +-+|+|.|++|+||||+|+.+......
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999887653

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.66  E-value=0.00054  Score=54.55  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=24.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ++|.|.|++|+||||+++.+...+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            578999999999999999999888643

>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=96.65  E-value=0.0016  Score=56.69  Aligned_cols=41  Identities=32%  Similarity=0.507  Sum_probs=31.1

Q ss_pred             HHHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          130 ACNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       130 ~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ....+++.+.  ..+..+|+|.|++|+|||||...+.......
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~   78 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAA   78 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhc
Confidence            3455555553  3467899999999999999999998876543

>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=96.65  E-value=0.00055  Score=55.08  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=23.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..++|.|.|++|+||||+|+.+.....
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357999999999999999999988654

>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=96.63  E-value=0.00038  Score=56.39  Aligned_cols=28  Identities=39%  Similarity=0.655  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||.+.++...+.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~~p   53 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYLKP   53 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccccc
Confidence            4679999999999999999999876653

>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=96.62  E-value=0.00092  Score=54.44  Aligned_cols=31  Identities=35%  Similarity=0.423  Sum_probs=26.5

Q ss_pred             HhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          138 LKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       138 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +......+|-+.|++|+||||+|+.+.....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4456678999999999999999999987764

>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=96.61  E-value=0.00057  Score=54.36  Aligned_cols=26  Identities=27%  Similarity=0.493  Sum_probs=22.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .++|.|+||+|+|||||++.+.....
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            36899999999999999999887653

>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=96.60  E-value=0.0019  Score=56.30  Aligned_cols=41  Identities=27%  Similarity=0.435  Sum_probs=31.5

Q ss_pred             HHHHHHHHh--cCCCcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          131 CNQIIEALK--KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       131 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      ..++++.+.  .++..+|+|.|++|+|||||...+.......+
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            345555553  34678999999999999999999988777553

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.60  E-value=0.00056  Score=54.22  Aligned_cols=24  Identities=33%  Similarity=0.320  Sum_probs=21.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478999999999999999988764

>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=96.57  E-value=0.00056  Score=56.16  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      -+|+|-||+|+||||+|+.+...+.
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            3688999999999999999999886

>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=96.57  E-value=0.0062  Score=51.16  Aligned_cols=84  Identities=17%  Similarity=0.203  Sum_probs=55.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCC------CCHHHHHHHHH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTE------KDEEDRADRLR  215 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  215 (375)
                      ..+++-|+|++|+|||||+-+++......+  ..++|+.....++..     .++.++.+.+.      .+.++..+.+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            467999999999999999999887776443  346788877776653     35666654322      23444444444


Q ss_pred             HHhhhcCCCcEEEEEeCCC
Q 038205          216 LMFSESKSRKILVILDDVW  234 (375)
Q Consensus       216 ~~~~~l~~kr~LlVlDdv~  234 (375)
                      .+.+  .+..-|+|+|.+.
T Consensus       126 ~l~~--~~~~~liViDSi~  142 (263)
T d1u94a1         126 ALAR--SGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHH--HTCCSEEEEECGG
T ss_pred             HHHh--cCCCCEEEEECcc
Confidence            4221  1344588999874

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.54  E-value=0.00056  Score=54.90  Aligned_cols=24  Identities=38%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|+||+|+|||||++.+.....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            477999999999999999988765

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.53  E-value=0.00065  Score=53.98  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478999999999999999998874

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.50  E-value=0.00065  Score=53.89  Aligned_cols=24  Identities=38%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478899999999999999998874

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.50  E-value=0.00064  Score=54.34  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|+||+|+|||||++.+.....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            4588999999999999999988765

>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=96.48  E-value=0.00089  Score=53.53  Aligned_cols=24  Identities=29%  Similarity=0.256  Sum_probs=20.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|+|++|+||||+|+.+.....
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            445789999999999999998664

>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=96.45  E-value=0.00093  Score=53.51  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=22.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .-.|.|.||+|+||||+|+.+.....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            44677889999999999999998764

>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=96.44  E-value=0.0016  Score=55.45  Aligned_cols=40  Identities=28%  Similarity=0.518  Sum_probs=32.0

Q ss_pred             HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          131 CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       131 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +..+.+.+.....++|.+.|.||+||||++..+.......
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4455666677788999999999999999988887776654

>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=96.35  E-value=0.00096  Score=54.86  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-..
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            4567999999999999999999977654

>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=96.32  E-value=0.0012  Score=52.29  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=20.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.+.....
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            456789999999999999988764

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.28  E-value=0.0011  Score=52.42  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=21.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999998764

>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=96.28  E-value=0.0011  Score=55.72  Aligned_cols=28  Identities=18%  Similarity=0.378  Sum_probs=24.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||++.+..-.+
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcCcc
Confidence            3567999999999999999999987654

>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=96.27  E-value=0.0011  Score=58.28  Aligned_cols=47  Identities=19%  Similarity=0.143  Sum_probs=35.2

Q ss_pred             CCCCccchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          120 FFSSFETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       120 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ++...+|.+..+..|.-.....+.+-+.|.|++|+||||||+.+..-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            45677899887776654443333456899999999999999998753

>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=96.25  E-value=0.0011  Score=54.87  Aligned_cols=26  Identities=19%  Similarity=0.395  Sum_probs=22.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+++|+||+|+|||||++.+..-.+.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p   50 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCCC
Confidence            58899999999999999999876653

>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=96.22  E-value=0.0013  Score=52.08  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +.|.|+||+|+|||||++.+.....
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            5789999999999999999887654

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.19  E-value=0.0014  Score=55.48  Aligned_cols=28  Identities=29%  Similarity=0.497  Sum_probs=24.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      +.|+|+|-||+||||+|..+.......+
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G   29 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG   29 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC
Confidence            6899999999999999999988887543

>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=96.14  E-value=0.0036  Score=53.41  Aligned_cols=31  Identities=26%  Similarity=0.412  Sum_probs=26.2

Q ss_pred             cCCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          140 KDSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       140 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +..+++|.+.|.||+||||++..++......
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~   35 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAEQ   35 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHHC
Confidence            4457899999999999999999988877654

>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=96.14  E-value=0.0016  Score=52.78  Aligned_cols=26  Identities=15%  Similarity=0.181  Sum_probs=22.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+|.|+||+|+|||||.+.+.....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46889999999999999999887653

>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=96.13  E-value=0.0014  Score=54.37  Aligned_cols=28  Identities=29%  Similarity=0.588  Sum_probs=24.2

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+++|+|++|+|||||.+.+.....
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3467999999999999999999977655

>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=96.12  E-value=0.0056  Score=52.60  Aligned_cols=28  Identities=25%  Similarity=0.373  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+-+|+|.|++|+||||+|+.+......
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~  106 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSR  106 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTT
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhh
Confidence            3569999999999999999999887753

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.10  E-value=0.0014  Score=52.28  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      +-+|+|.|+.|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999998773

>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=96.06  E-value=0.0015  Score=54.35  Aligned_cols=27  Identities=33%  Similarity=0.474  Sum_probs=23.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...+++|+|++|+|||||.+.+..-.+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            467999999999999999999977654

>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=96.01  E-value=0.04  Score=45.19  Aligned_cols=46  Identities=15%  Similarity=-0.005  Sum_probs=33.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh----cCCccEEEEEEecCCCCh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ----NNIFDKVGIATVSQDPSI  187 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~  187 (375)
                      ...++.|+|++|+|||++|.++......    ...+..+.|+.....+..
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHH
Confidence            4679999999999999999999865432    224456777776665543

>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=95.94  E-value=0.0044  Score=53.67  Aligned_cols=45  Identities=24%  Similarity=0.292  Sum_probs=34.4

Q ss_pred             ccchHHHHHHHHHHHh-------c-C-CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALK-------K-D-STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~-------~-~-~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+|.++.++.+...+.       + + ...++.++||+|+|||.||+.+.....
T Consensus        24 viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          24 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc
Confidence            4678888888876652       1 1 234788999999999999999988653

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.89  E-value=0.0019  Score=54.14  Aligned_cols=28  Identities=25%  Similarity=0.380  Sum_probs=24.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...+++|+|++|+|||||++.+....+.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~~p   56 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFLKA   56 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCCcC
Confidence            4679999999999999999999877653

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.82  E-value=0.0024  Score=52.84  Aligned_cols=24  Identities=42%  Similarity=0.530  Sum_probs=21.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ||+|.|+.|+|||||...+.+...
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            789999999999999999986654

>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=95.82  E-value=0.0019  Score=51.69  Aligned_cols=27  Identities=26%  Similarity=0.177  Sum_probs=23.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+-+|+|-|..|+||||+++.+.....
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999887654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.77  E-value=0.002  Score=53.29  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=22.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+++|+|++|+|||||.+.+....
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            46799999999999999999987643

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.77  E-value=0.012  Score=48.38  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=21.5

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +.+++.|.||++.||||+++.+.-.
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHH
Confidence            4578999999999999999998544

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.75  E-value=0.0017  Score=55.15  Aligned_cols=28  Identities=18%  Similarity=0.430  Sum_probs=21.2

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..++|+|.|.+|+||||+++.+.+....
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4569999999999999999998877654

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.72  E-value=0.003  Score=54.02  Aligned_cols=37  Identities=27%  Similarity=0.360  Sum_probs=27.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      .+.|+|+|-||+||||++..+.......++  .+.-+..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G~--rVLlID~   38 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGK--KVMIVGC   38 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTC--CEEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHCCC--CEEEEec
Confidence            367889999999999999998887765432  2444444

>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=95.68  E-value=0.0097  Score=48.86  Aligned_cols=48  Identities=13%  Similarity=-0.017  Sum_probs=33.7

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcC----CccEEEEEEecCCCChhH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNN----IFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~  189 (375)
                      ..+++.|+|++|+|||||+.++........    .-...+|+.....+....
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            467999999999999999999876543221    123567777666655333

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.65  E-value=0.0056  Score=49.59  Aligned_cols=29  Identities=21%  Similarity=0.308  Sum_probs=25.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcC
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  171 (375)
                      +..|+|-|+.|+||||+++.+.+.....+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g   31 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAG   31 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            46899999999999999999999887643

>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=95.65  E-value=0.0098  Score=47.97  Aligned_cols=36  Identities=31%  Similarity=0.413  Sum_probs=27.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEE
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIA  179 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  179 (375)
                      .+.|+|-|+.|+||||+++.+.......+ +..+.+.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~g-~~~~~~~   37 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFT   37 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhCC-CCeEEEe
Confidence            46899999999999999999998876532 3334443

>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=95.64  E-value=0.009  Score=45.73  Aligned_cols=30  Identities=33%  Similarity=0.364  Sum_probs=25.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      ....+|.+.|.=|+||||+++.+++.....
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            345589999999999999999999887653

>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=95.60  E-value=0.014  Score=48.23  Aligned_cols=48  Identities=17%  Similarity=0.101  Sum_probs=34.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhc----CCccEEEEEEecCCCChhH
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQN----NIFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~  189 (375)
                      ..+++.|+|++|+||||++.++.......    ......+|+......+...
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   86 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHH
Confidence            46799999999999999999987665422    2234567777666655433

>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=95.60  E-value=0.031  Score=47.11  Aligned_cols=94  Identities=15%  Similarity=0.086  Sum_probs=52.3

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhhhhcC------CccEEEEEEecCCC-ChhHHHHHHHHHhCCC-------CCCCC
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQLRQNN------IFDKVGIATVSQDP-SIINVQSELVKSLGWA-------LTEKD  206 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~  206 (375)
                      ...+.++|.|.+|+|||+|+..+.......+      .-..++++-+.... ...++...+...-...       ....+
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~  145 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDA  145 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSC
T ss_pred             cCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCC
Confidence            4567899999999999999887765543211      11134555555543 3334444443321110       11112


Q ss_pred             H-H-----HHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          207 E-E-----DRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       207 ~-~-----~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      . .     .....+.+++.. +++.+|+++||+..
T Consensus       146 ~~~r~~~~~~a~tiAEyfrd-~G~~VLll~Dsltr  179 (285)
T d2jdia3         146 APLQYLAPYSGCSMGEYFRD-NGKHALIIYDDLSK  179 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-TTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH-cCCcEEEEEcChHH
Confidence            2 1     122334554543 68999999999753

>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=95.53  E-value=0.0075  Score=49.70  Aligned_cols=39  Identities=15%  Similarity=0.111  Sum_probs=31.0

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEec
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS  182 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  182 (375)
                      ...++.|+|++|+|||+++.++......  ....++|++..
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~--~~~~~~~is~e   63 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACA--NKERAILFAYE   63 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT--TTCCEEEEESS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH--hccccceeecc
Confidence            4679999999999999999999888653  34556777654

>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=95.52  E-value=0.016  Score=48.76  Aligned_cols=91  Identities=18%  Similarity=0.112  Sum_probs=51.3

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCC-ChhHHHHHHHHHhCC-------CCCCCCH------
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDP-SIINVQSELVKSLGW-------ALTEKDE------  207 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~------  207 (375)
                      ..+.++|.|.+|+|||+|+........  .+-..++++-+.... ...++..++...=..       ...+.+.      
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~~--~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a  143 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQQ--GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLA  143 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCC--TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHH
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhhc--ccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHH
Confidence            467899999999999999987655443  233456666666543 223333333222000       0111111      


Q ss_pred             HHHHHHHHHHhhhcCCCcEEEEEeCCCC
Q 038205          208 EDRADRLRLMFSESKSRKILVILDDVWK  235 (375)
Q Consensus       208 ~~~~~~l~~~~~~l~~kr~LlVlDdv~~  235 (375)
                      ....-.+.+++.. +++++|+++||+..
T Consensus       144 ~~~a~tiAEyfrd-~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         144 PYTGAALAEYFMY-RERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHH-TTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHH-cCCceeEEeeccHH
Confidence            1233444454433 47999999999743

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.51  E-value=0.0035  Score=47.88  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=19.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|.|+|++|+|||||...+....
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36799999999999999987654

>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=95.26  E-value=0.0058  Score=51.86  Aligned_cols=56  Identities=18%  Similarity=0.138  Sum_probs=34.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhcCCcc-EEEEEEecCCCChhHHHHHHHHHh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFD-KVGIATVSQDPSIINVQSELVKSL  198 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l  198 (375)
                      +-+|+|.|+.|+|||||+..+........... .++.+++..-.-...-...+.+..
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~   83 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQF   83 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHT
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhc
Confidence            45899999999999999999887765432222 344445433222233334444443

>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=95.24  E-value=0.015  Score=47.18  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .+..|+|-|+-|+||||+++.+......
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4678999999999999999999988764

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.24  E-value=0.0096  Score=47.79  Aligned_cols=26  Identities=27%  Similarity=0.609  Sum_probs=23.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      .|+|-|.-|+||||+++.+.......
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            68999999999999999999887654

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.22  E-value=0.0054  Score=50.67  Aligned_cols=28  Identities=21%  Similarity=0.398  Sum_probs=24.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      +++.|+|=|+-|+||||+++.+......
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3679999999999999999999987653

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.18  E-value=0.0047  Score=47.50  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .|+|+|.+|+|||||...+.+..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987653

>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=95.16  E-value=0.0066  Score=48.90  Aligned_cols=28  Identities=14%  Similarity=0.180  Sum_probs=23.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ...++.|.|++|+|||+|+.++......
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999998876543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.13  E-value=0.0059  Score=48.62  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=21.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +.+.|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCC
Confidence            4567999999999999999999864

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.12  E-value=0.0086  Score=46.58  Aligned_cols=34  Identities=24%  Similarity=0.283  Sum_probs=25.3

Q ss_pred             HHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          132 NQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       132 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .++..++...+ -.|.|+|.+|+|||||...+...
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            34555555444 46789999999999999988654

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.05  E-value=0.0055  Score=49.44  Aligned_cols=21  Identities=48%  Similarity=0.623  Sum_probs=18.4

Q ss_pred             cEEEEEcCCCchHHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            379999999999999998663

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.04  E-value=0.0056  Score=49.49  Aligned_cols=19  Identities=42%  Similarity=0.527  Sum_probs=17.6

Q ss_pred             EEEEEcCCCchHHHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAKFV  163 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v  163 (375)
                      +|+|+|+.|+||||+++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.02  E-value=0.018  Score=47.76  Aligned_cols=45  Identities=24%  Similarity=0.352  Sum_probs=33.0

Q ss_pred             ccchHHHHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          124 FETTESACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       124 ~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      |+|....++++.+.+..  ....-|.|.|+.|+|||++|+.+.....
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~   48 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD   48 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            56766777777766632  2334578999999999999999976443

>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=95.01  E-value=0.0079  Score=46.99  Aligned_cols=33  Identities=27%  Similarity=0.406  Sum_probs=24.0

Q ss_pred             HHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          134 IIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       134 l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +++.+.- .....|+|+|.+|+|||||...+...
T Consensus         3 ~~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3444432 34457889999999999999988654

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.00  E-value=0.0039  Score=51.45  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=23.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .+.|+|-|+.|+||||+++.+.....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999999988764

>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=94.88  E-value=0.014  Score=51.45  Aligned_cols=25  Identities=32%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..-+..+||.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4568889999999999999998764

>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=94.83  E-value=0.0067  Score=47.31  Aligned_cols=22  Identities=27%  Similarity=0.255  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3779999999999999998765

>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=94.83  E-value=0.0071  Score=46.65  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=18.7

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987754

>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=94.77  E-value=0.0073  Score=46.54  Aligned_cols=21  Identities=29%  Similarity=0.207  Sum_probs=19.1

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998765

>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=94.77  E-value=0.0072  Score=46.73  Aligned_cols=22  Identities=27%  Similarity=0.240  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>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=94.74  E-value=0.0069  Score=46.69  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|.|+|++|+|||||...+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999998654

>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=94.73  E-value=0.0079  Score=46.71  Aligned_cols=22  Identities=32%  Similarity=0.298  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=94.67  E-value=0.015  Score=47.24  Aligned_cols=35  Identities=34%  Similarity=0.560  Sum_probs=27.0

Q ss_pred             HHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          131 CNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       131 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ++.|.++|.   .+...++|.+|+|||||...+..+..
T Consensus        86 ~~~L~~~l~---~kt~~~~G~SGVGKSTLiN~L~~~~~  120 (225)
T d1u0la2          86 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGLK  120 (225)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             HhhHHHHhc---CCeEEEECCCCCCHHHHHHhhcchhh
Confidence            556666663   36888999999999999998876543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.66  E-value=0.0094  Score=45.38  Aligned_cols=22  Identities=36%  Similarity=0.493  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+++|.+|+|||||+..+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988764

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.65  E-value=0.0086  Score=48.00  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999998764

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.62  E-value=0.0082  Score=46.56  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999988654

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.61  E-value=0.0085  Score=46.33  Aligned_cols=22  Identities=36%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998765

>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=94.58  E-value=0.0088  Score=46.40  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=19.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999988764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.55  E-value=0.0088  Score=46.57  Aligned_cols=22  Identities=41%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+++|.+|+|||||+..+.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999988654

>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=94.55  E-value=0.0085  Score=46.54  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||++.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998764

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.52  E-value=0.0092  Score=46.25  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||+|...+.+..
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36899999999999999988653

>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=94.51  E-value=0.0088  Score=46.03  Aligned_cols=21  Identities=29%  Similarity=0.243  Sum_probs=18.9

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998754

>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=94.47  E-value=0.0095  Score=46.05  Aligned_cols=23  Identities=30%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987643

>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=94.47  E-value=0.0096  Score=46.56  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .+.|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999865

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.45  E-value=0.0092  Score=47.05  Aligned_cols=22  Identities=32%  Similarity=0.258  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4789999999999999988754

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.44  E-value=0.0099  Score=46.04  Aligned_cols=21  Identities=48%  Similarity=0.675  Sum_probs=18.7

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |.++|.+|+|||||+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988654

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.44  E-value=0.011  Score=45.99  Aligned_cols=32  Identities=19%  Similarity=0.151  Sum_probs=23.1

Q ss_pred             HHHhcCCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          136 EALKKDSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       136 ~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.+.....--|.++|.+|+|||||...+.+..
T Consensus         5 ~~~~~~k~~kIvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           5 SKIFGNKEMRILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHTTCCEEEEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhCCCeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            33433333457799999999999999986543

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.41  E-value=0.01  Score=45.83  Aligned_cols=22  Identities=41%  Similarity=0.360  Sum_probs=19.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988754

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.38  E-value=0.072  Score=43.18  Aligned_cols=107  Identities=16%  Similarity=0.196  Sum_probs=55.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh--hc-----------CCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR--QN-----------NIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDR  210 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~--~~-----------~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~  210 (375)
                      +++.|.||+..||||+.+.+.-..-  ..           ..|+. ++..+....++..             ...+-..-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~~-------------~~StF~~e  101 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLAG-------------GKSTFMVE  101 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC-------------------CCSHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCccccC-------------CccHHHHh
Confidence            5889999999999999998754321  11           12332 3333332222111             00111111


Q ss_pred             HHHHHHHhhhcCCCcEEEEEeCCCCcccc-------cccCCCCCCCCCCcEEEEEeCChhHHhh
Q 038205          211 ADRLRLMFSESKSRKILVILDDVWKELDL-------ETIGIPVGDRDNCCKILLTTRLQQVCYR  267 (375)
Q Consensus       211 ~~~l~~~~~~l~~kr~LlVlDdv~~~~~~-------~~l~~~l~~~~~gs~IivTTr~~~v~~~  267 (375)
                      ...+..++.. .+++.|+++|++-....-       ..+...+.  ..++.+++||+..++...
T Consensus       102 l~~~~~il~~-~~~~sLvliDE~~~gT~~~eg~ala~aile~L~--~~~~~~i~tTH~~eL~~l  162 (224)
T d1ewqa2         102 MEEVALILKE-ATENSLVLLDEVGRGTSSLDGVAIATAVAEALH--ERRAYTLFATHYFELTAL  162 (224)
T ss_dssp             HHHHHHHHHH-CCTTEEEEEESTTTTSCHHHHHHHHHHHHHHHH--HHTCEEEEECCCHHHHTC
T ss_pred             HHHHHHHhcc-CCCCcEEeecccccCcchhhhcchHHHHHHHHh--hcCcceEEeeechhhhhh
Confidence            2223332222 357889999998754210       01111121  235789999998877653

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.36  E-value=0.01  Score=45.90  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .-|.|+|.+|+|||||+..+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            46889999999999999997654

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.36  E-value=0.01  Score=46.02  Aligned_cols=23  Identities=26%  Similarity=0.203  Sum_probs=19.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987543

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.32  E-value=0.01  Score=46.00  Aligned_cols=22  Identities=32%  Similarity=0.360  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||||...+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.32  E-value=0.012  Score=47.24  Aligned_cols=23  Identities=30%  Similarity=0.196  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +-|+|+|++|+|||||...+...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998764

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.32  E-value=0.011  Score=45.63  Aligned_cols=22  Identities=32%  Similarity=0.296  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.32  E-value=0.0091  Score=48.77  Aligned_cols=25  Identities=36%  Similarity=0.476  Sum_probs=22.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..++..|.|+-|+|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4578999999999999999998775

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.011  Score=46.13  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5789999999999999988754

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.01  Score=45.80  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.011  Score=46.21  Aligned_cols=22  Identities=36%  Similarity=0.380  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988664

>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=94.27  E-value=0.032  Score=45.58  Aligned_cols=27  Identities=26%  Similarity=0.329  Sum_probs=23.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ...++.|.|++|+|||+++.+++....
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999976654

>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=94.27  E-value=0.014  Score=47.52  Aligned_cols=37  Identities=32%  Similarity=0.496  Sum_probs=27.8

Q ss_pred             cEEEEE-cCCCchHHHHHHHHHhhhhhcCCccEEEEEEec
Q 038205          144 KMVGLH-GLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVS  182 (375)
Q Consensus       144 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  182 (375)
                      ++|+|+ |-||+||||+|..++......+  ..+..+...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g--~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLG--HDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTT--CCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCC--CCEEEEeCC
Confidence            678887 7899999999999988887542  245566543

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.25  E-value=0.013  Score=48.33  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .+|+|.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999887643

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.20  E-value=0.011  Score=45.93  Aligned_cols=22  Identities=23%  Similarity=0.217  Sum_probs=19.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987654

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.16  E-value=0.012  Score=45.29  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|++|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47789999999999999886543

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.15  E-value=0.012  Score=46.02  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=19.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47889999999999998887653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.13  E-value=0.013  Score=45.28  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||+|+..+....
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999986553

>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=94.11  E-value=0.013  Score=45.57  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..|+|+|.+|+|||||...+.+.
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999864

>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=94.10  E-value=0.012  Score=45.84  Aligned_cols=23  Identities=39%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -.|.++|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999988653

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.07  E-value=0.013  Score=46.62  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37899999999999999987643

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.05  E-value=0.013  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.247  Sum_probs=19.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|+++|.+|+|||+|+..+.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4688999999999999988764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.97  E-value=0.011  Score=46.25  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998764

>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=93.96  E-value=0.014  Score=45.11  Aligned_cols=22  Identities=41%  Similarity=0.356  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987654

>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=93.95  E-value=0.014  Score=45.90  Aligned_cols=23  Identities=30%  Similarity=0.229  Sum_probs=19.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.|+|.+|+|||+|+..+....
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999887643

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.92  E-value=0.0096  Score=46.65  Aligned_cols=21  Identities=33%  Similarity=0.493  Sum_probs=19.0

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998654

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=93.92  E-value=0.014  Score=52.80  Aligned_cols=27  Identities=30%  Similarity=0.383  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..=|.++||+|+|||.||+.++....+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~V   75 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANA   75 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCC
Confidence            345889999999999999999987753

>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=93.85  E-value=0.016  Score=45.55  Aligned_cols=22  Identities=41%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>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=93.84  E-value=0.015  Score=45.83  Aligned_cols=22  Identities=36%  Similarity=0.345  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999987764

>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=93.83  E-value=0.019  Score=44.72  Aligned_cols=24  Identities=29%  Similarity=0.207  Sum_probs=20.7

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..-|.|.|++|+||||+|..+..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            457899999999999999887764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.82  E-value=0.015  Score=45.13  Aligned_cols=21  Identities=43%  Similarity=0.488  Sum_probs=18.6

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887654

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=93.81  E-value=0.015  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .|+++|.+|+|||||...+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998754

>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=93.75  E-value=0.015  Score=46.16  Aligned_cols=19  Identities=37%  Similarity=0.464  Sum_probs=17.5

Q ss_pred             EEEEEcCCCchHHHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAKFV  163 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v  163 (375)
                      -|.++|.+|+|||||+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999988

>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=93.75  E-value=0.021  Score=46.55  Aligned_cols=36  Identities=28%  Similarity=0.374  Sum_probs=27.1

Q ss_pred             cEEEEE-cCCCchHHHHHHHHHhhhhhcCCccEEEEEEe
Q 038205          144 KMVGLH-GLGGVGKTTLAKFVGNQLRQNNIFDKVGIATV  181 (375)
Q Consensus       144 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  181 (375)
                      ++|+|+ +-||+||||++..++......+ . .++.+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g-~-~VlliD~   39 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRG-R-KVLAVDG   39 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTT-C-CEEEEEC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCC-C-CEEEEeC
Confidence            688898 5699999999999988887543 2 3555543

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.74  E-value=0.012  Score=46.33  Aligned_cols=22  Identities=45%  Similarity=0.623  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|+|+|.+++|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999988653

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.016  Score=44.99  Aligned_cols=22  Identities=45%  Similarity=0.524  Sum_probs=18.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988653

>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=93.67  E-value=0.018  Score=45.34  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||+|+..+....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999876543

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.64  E-value=0.017  Score=45.16  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999988764

>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=93.60  E-value=0.017  Score=44.99  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987654

>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=93.59  E-value=0.018  Score=44.56  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5789999999999999997654

>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=93.57  E-value=0.018  Score=44.53  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||||+..+.+..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999987643

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.50  E-value=0.011  Score=45.91  Aligned_cols=22  Identities=41%  Similarity=0.378  Sum_probs=17.7

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999887654

>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=93.48  E-value=0.04  Score=46.19  Aligned_cols=54  Identities=19%  Similarity=0.214  Sum_probs=34.6

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSL  198 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  198 (375)
                      ...++.|.|++|+||||++.++..+......+. +.+++  -..+...+...++...
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s--~E~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAM--LEESVEETAEDLIGLH   87 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEE--SSSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEee--eccchhhHHhHHHHHh
Confidence            356899999999999999999887654333333 33333  3344555555555443

>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=93.47  E-value=0.023  Score=44.30  Aligned_cols=24  Identities=33%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ..-|.|.|++|+||||+|..+..+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            456889999999999999888764

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.41  E-value=0.024  Score=45.52  Aligned_cols=28  Identities=21%  Similarity=0.134  Sum_probs=24.2

Q ss_pred             cEEEEEcCC-CchHHHHHHHHHhhhhhcC
Q 038205          144 KMVGLHGLG-GVGKTTLAKFVGNQLRQNN  171 (375)
Q Consensus       144 ~vi~I~G~~-GiGKTtLa~~v~~~~~~~~  171 (375)
                      +.+.|.|.+ |+||||++-.++.....++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G   30 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAG   30 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCC
Confidence            468899998 9999999999999887654

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.39  E-value=0.019  Score=45.39  Aligned_cols=23  Identities=30%  Similarity=0.216  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||+|+..+.+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37889999999999998876543

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.39  E-value=0.021  Score=45.14  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=19.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||+|+..+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988554

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.35  E-value=0.021  Score=44.52  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|.++|.+|+|||||+..+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999887653

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.26  E-value=0.02  Score=44.80  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -.|+|+|.+|+|||||...+.+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            35899999999999999888764

>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=93.12  E-value=0.029  Score=43.40  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=21.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ..-|.|.|++|+||||+|..+..+-
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            4578999999999999998877653

>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=93.12  E-value=0.015  Score=45.56  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...--|.++|.+|+|||||...+...
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcC
Confidence            34446789999999999999987543

>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=93.08  E-value=0.055  Score=46.56  Aligned_cols=105  Identities=17%  Similarity=0.090  Sum_probs=55.1

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhhcCCccEEEEEEecCCCChhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhhcCC
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQNNIFDKVGIATVSQDPSIINVQSELVKSLGWALTEKDEEDRADRLRLMFSESKS  223 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~l~~  223 (375)
                      +-|.|.|+.|+||||+++.+........   .++-+.-.....+..- ..+. ++    .....-...+.++.   .++.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~---rivtiEd~~El~l~~~-~~~~-~~----~~~~~~~~~~ll~~---~lR~  234 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEE---RIISIEDTEEIVFKHH-KNYT-QL----FFGGNITSADCLKS---CLRM  234 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTC---CEEEEESSCCCCCSSC-SSEE-EE----ECBTTBCHHHHHHH---HTTS
T ss_pred             CCEEEEeeccccchHHHHHHhhhccccc---ceeeccchhhhhcccc-cccc-ee----ccccchhHHHHHHH---Hhcc
Confidence            3478999999999999999987765321   1222211111110000 0000 00    00111133445555   7777


Q ss_pred             CcEEEEEeCCCCcccccccCCCCCCCCCCcEEEEEeCChh
Q 038205          224 RKILVILDDVWKELDLETIGIPVGDRDNCCKILLTTRLQQ  263 (375)
Q Consensus       224 kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~IivTTr~~~  263 (375)
                      .+=.+|+.++.+.+.+..+ .....++.|  ++.|.+-.+
T Consensus       235 ~pd~iivgEiR~~ea~~~l-~a~~tGh~g--~~tT~Ha~s  271 (323)
T d1g6oa_         235 RPDRIILGELRSSEAYDFY-NVLCSGHKG--TLTTLHAGS  271 (323)
T ss_dssp             CCSEEEESCCCSTHHHHHH-HHHHTTCSC--EEEEECCSS
T ss_pred             CCCcccCCccCchhHHHHH-HHHHhcCCc--EEEEECCCC
Confidence            7888999999887776544 233222233  566666443

>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=93.05  E-value=0.033  Score=46.54  Aligned_cols=27  Identities=30%  Similarity=0.366  Sum_probs=22.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      ..+..|+|++|+|||||+..++.....
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            358889999999999999988776543

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=93.04  E-value=0.016  Score=45.22  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=21.7

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      +....|+|+|.+++|||||...+...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34578999999999999999887553

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.02  E-value=0.03  Score=45.44  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      ...++.|.|++|+|||+||.++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4679999999999999999876543

>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=92.91  E-value=0.049  Score=48.51  Aligned_cols=40  Identities=20%  Similarity=0.179  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          128 ESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       128 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ....+.+.+ +.....+.|.|.|+.|+||||++..+.+...
T Consensus       144 ~~~~~~l~~-l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         144 AHNHDNFRR-LIKRPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             HHHHHHHHH-HHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH-HHhhhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            444455544 4445568999999999999999999888764

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.83  E-value=0.025  Score=45.94  Aligned_cols=22  Identities=32%  Similarity=0.361  Sum_probs=19.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      .-|.++|.+|+|||||+..+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999998754

>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=92.82  E-value=0.016  Score=44.96  Aligned_cols=22  Identities=32%  Similarity=0.289  Sum_probs=8.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      -|.++|.+|+|||||+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999877653

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.54  E-value=0.014  Score=44.55  Aligned_cols=23  Identities=30%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|+++|.+|+|||||...+.+..
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987653

>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=92.02  E-value=0.074  Score=44.12  Aligned_cols=40  Identities=20%  Similarity=0.368  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhcC--CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          128 ESACNQIIEALKKD--STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       128 ~~~~~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ...+.++...+...  ..-.|.|+|.+|+|||||...+.+..
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            34455555555443  34578899999999999999998753

>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=91.98  E-value=0.016  Score=45.88  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ++..|+|++|+||||+..++.--.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999999987554

>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=91.79  E-value=0.054  Score=47.41  Aligned_cols=47  Identities=17%  Similarity=0.005  Sum_probs=29.5

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc-CCccEEEEEEecCCCChhH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN-NIFDKVGIATVSQDPSIIN  189 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~  189 (375)
                      .++..|.|++|+||||++..+....... ..-...+.+..+..-....
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~  210 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAAR  210 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHH
Confidence            4699999999999999887655443321 1223356666655433333

>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=91.28  E-value=0.12  Score=40.79  Aligned_cols=40  Identities=13%  Similarity=0.107  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          129 SACNQIIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       129 ~~~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..+..+..+|.. +....+.++||++.|||++|..+.+-..
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            445666666643 4567999999999999999998877654

>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=91.25  E-value=0.033  Score=45.30  Aligned_cols=24  Identities=33%  Similarity=0.533  Sum_probs=19.3

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +...++|++|+|||||...+..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            566789999999999998887654

>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=90.78  E-value=0.083  Score=44.58  Aligned_cols=23  Identities=17%  Similarity=0.118  Sum_probs=16.5

Q ss_pred             cEEEEEcCCCchHHHHH-HHHHhh
Q 038205          144 KMVGLHGLGGVGKTTLA-KFVGNQ  166 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa-~~v~~~  166 (375)
                      ..+.|.|++|+||||++ ..+...
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHH
Confidence            45778999999999754 444443

>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=90.70  E-value=0.09  Score=44.77  Aligned_cols=17  Identities=24%  Similarity=0.227  Sum_probs=13.8

Q ss_pred             EEEEEcCCCchHHHHHH
Q 038205          145 MVGLHGLGGVGKTTLAK  161 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~  161 (375)
                      .+.|.|++|+||||.+-
T Consensus        26 ~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             CEEEEECTTSCHHHHHH
T ss_pred             CEEEEecCCccHHHHHH
Confidence            46788999999997553

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=90.42  E-value=0.09  Score=42.61  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=21.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      .++|+|+|-.++|||||+..+....
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhc
Confidence            4679999999999999999886643

>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=90.23  E-value=0.1  Score=44.88  Aligned_cols=28  Identities=21%  Similarity=0.361  Sum_probs=24.0

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhhc
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQN  170 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  170 (375)
                      +-.|.|=|+-|+||||+++.+.+.....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~   33 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGG   33 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccC
Confidence            3478899999999999999999987643

>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=89.89  E-value=0.071  Score=45.17  Aligned_cols=21  Identities=19%  Similarity=0.476  Sum_probs=18.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHH
Q 038205          144 KMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      ++-.|+|++|+||||+..++.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            578999999999999988774

>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=89.50  E-value=0.1  Score=43.51  Aligned_cols=22  Identities=41%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCchHHHHHHHHHh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      |-|+|+|..|.|||||+..+..
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Confidence            5689999999999999998853

>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=89.38  E-value=0.097  Score=40.58  Aligned_cols=21  Identities=38%  Similarity=0.509  Sum_probs=19.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      -|+|+|.+++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998875

>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=89.24  E-value=0.11  Score=43.49  Aligned_cols=26  Identities=19%  Similarity=0.148  Sum_probs=21.9

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.|-|+|+|..|.|||||+..+....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            35679999999999999999986543

>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=88.25  E-value=0.13  Score=45.36  Aligned_cols=22  Identities=18%  Similarity=0.468  Sum_probs=19.2

Q ss_pred             CcEEEEEcCCCchHHHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVG  164 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~  164 (375)
                      .++-+|+|+.|+|||++..++.
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            4577899999999999999874

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=88.00  E-value=0.27  Score=40.74  Aligned_cols=38  Identities=21%  Similarity=0.301  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhc--CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          130 ACNQIIEALKK--DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       130 ~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      ....+..+|..  +....+.++|+|+.|||+++..+..-.
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34445556632  446789999999999999999988765

>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=87.07  E-value=0.16  Score=42.40  Aligned_cols=23  Identities=35%  Similarity=0.431  Sum_probs=20.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHhhh
Q 038205          145 MVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       145 vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      -|+|+|.+.+|||||-..+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999887654

>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=86.99  E-value=0.14  Score=44.00  Aligned_cols=26  Identities=31%  Similarity=0.280  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      -.|.|=|.-|+||||+++.+.+....
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            35899999999999999999887754

>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=86.93  E-value=0.13  Score=44.03  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      ..|.|=|+-|+||||+++.+.+...
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC---
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhC
Confidence            4589999999999999999987654

>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=86.15  E-value=0.18  Score=42.14  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=23.5

Q ss_pred             CCCcEEEEEcCCCchHHHHHHHHHhhh
Q 038205          141 DSTKMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       141 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      +.+.+|+|+|+-++|||||+..+++..
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            357799999999999999999988754

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=85.79  E-value=0.38  Score=34.92  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=19.4

Q ss_pred             CCcEEEEEcCCCchHHHHHHHHHh
Q 038205          142 STKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       142 ~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      +.++..|+++.|+|||+++-.++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            457888999999999998866554

>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=85.75  E-value=0.34  Score=42.77  Aligned_cols=23  Identities=22%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      +--|+|+|.+|+|||||...+..
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            34589999999999999999875

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=85.75  E-value=1.4  Score=35.31  Aligned_cols=44  Identities=18%  Similarity=0.077  Sum_probs=35.7

Q ss_pred             cchHHHHHHHHHHHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          125 ETTESACNQIIEALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       125 ~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      .......+++.+.+..+......|.|..|+|||-++-......-
T Consensus        58 ~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~  101 (233)
T d2eyqa3          58 PDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV  101 (233)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHH
Confidence            35667788888888888888899999999999998877665543

>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=84.37  E-value=0.25  Score=39.10  Aligned_cols=21  Identities=38%  Similarity=0.327  Sum_probs=18.6

Q ss_pred             EEEEcCCCchHHHHHHHHHhh
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~  166 (375)
                      |+|+|-.+.|||||+.++...
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            899999999999999988543

>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=84.26  E-value=0.24  Score=41.73  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCchHHHHHHHHHhhh
Q 038205          144 KMVGLHGLGGVGKTTLAKFVGNQL  167 (375)
Q Consensus       144 ~vi~I~G~~GiGKTtLa~~v~~~~  167 (375)
                      --|+|+|.+.+|||||-..+-+..
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHST
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCC
Confidence            469999999999999999998653

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=83.81  E-value=0.26  Score=41.95  Aligned_cols=29  Identities=21%  Similarity=0.188  Sum_probs=18.8

Q ss_pred             EEEEcCCCchHHHHHHHHHhhhhhcCCcc
Q 038205          146 VGLHGLGGVGKTTLAKFVGNQLRQNNIFD  174 (375)
Q Consensus       146 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~  174 (375)
                      |+|+|.+.+|||||-..+-+....-..|+
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~~~v~nyp   31 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVDVEIANYP   31 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC---------
T ss_pred             EeEECCCCCCHHHHHHHHHCCCCchhcCC
Confidence            89999999999999999876543334443

>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=83.02  E-value=0.42  Score=41.07  Aligned_cols=32  Identities=16%  Similarity=0.182  Sum_probs=24.0

Q ss_pred             HHHHHhc-CCCcEEEEEcCCCchHHHHHHHHHh
Q 038205          134 IIEALKK-DSTKMVGLHGLGGVGKTTLAKFVGN  165 (375)
Q Consensus       134 l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~  165 (375)
                      +.+++.+ +..|=|+|+|-.|.|||||+..+..
T Consensus         7 ~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           7 MRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            3333333 3466799999999999999998854

>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=81.83  E-value=0.48  Score=41.91  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=19.4

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQ  166 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~  166 (375)
                      .+.+.|+|++|+|||++++.+...
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            456899999999999988765544

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=80.49  E-value=0.52  Score=33.86  Aligned_cols=20  Identities=25%  Similarity=-0.036  Sum_probs=15.9

Q ss_pred             CcEEEEEcCCCchHHHHHHH
Q 038205          143 TKMVGLHGLGGVGKTTLAKF  162 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~  162 (375)
                      .+.+.|+++.|+|||..+-.
T Consensus         7 ~~~~il~~~tGsGKT~~~~~   26 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRFLP   26 (140)
T ss_dssp             TCEEEECCCTTSSTTTTHHH
T ss_pred             CCcEEEEcCCCCChhHHHHH
Confidence            46778899999999976643

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=80.49  E-value=0.74  Score=43.51  Aligned_cols=32  Identities=25%  Similarity=0.281  Sum_probs=26.2

Q ss_pred             HHhcCCCcEEEEEcCCCchHHHHHHHHHhhhh
Q 038205          137 ALKKDSTKMVGLHGLGGVGKTTLAKFVGNQLR  168 (375)
Q Consensus       137 ~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  168 (375)
                      +......+.|.|.|.+|+|||+-++.+.+...
T Consensus        80 l~~~~~~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          80 MRQSQENQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             HHHHCCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHcCCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34455678999999999999999999877654

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.02  E-value=0.61  Score=33.23  Aligned_cols=27  Identities=15%  Similarity=-0.031  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCchHHHHHHHHHhhhhh
Q 038205          143 TKMVGLHGLGGVGKTTLAKFVGNQLRQ  169 (375)
Q Consensus       143 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  169 (375)
                      .-.|.+.|..|+||+|||..+......
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            347889999999999999999877754