Citrus Sinensis ID: 045677

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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--
Protein Sequence
MNSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHHHccccEEEEccccHHHHHccccHHHHHHHHHHHHHcccccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHcccccccccHHHHHHHHHccccccHHHHHHHHHHccccccccHHHHcccccEEEccccEEEccHHHHHHHHHHHHHccccccccccccccccHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccEEccHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEEEcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHcHHHHEEcEEEEEccccEEEHHHHHHHHccHHEEcccccccccccccccHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
mnseleipkELVGMESRLEKLKFLMCtgsndvrtigiwgmgglgkTTLARVVYDLMshefdgssflADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGlfgkrdwfglgsmIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFlfgrpvdqwrstqerlkrdpenkiLGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILdscgfdpiIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVrrqspdepgrrsrlweeaDVSHVLSQNTVSE
Flexible Loop (DISEMBL)
mnseleipkelVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRglfgkrdwfglGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGrpvdqwrstqerlkrdpenkilGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQqivrrqspdepgrrsrlweeadvshvlsqntvse
Low Complexity Region (SEG)
MNSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIslqkqllsdllmlADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE
Disordered region (IsUnstruct)
****************RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRST********ENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEM************************************
Disordered Region (DISOPRED)
*NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT***
Disordered Region (DISEMBL)
MNSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIV*************LWEEADVSHVLSQNTVSE
Disordered Region (DISPRO)
***ELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVRRQSPD*PGRRSRLWEEADVSHVLSQN****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE
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	352	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.946	0.291	0.428	4e-69
Q9FL92	1372	Probable WRKY transcripti	no	no	0.920	0.236	0.374	4e-60
O82500	1095	Putative disease resistan	no	no	0.954	0.306	0.361	1e-58
Q9FH83	1288	Probable WRKY transcripti	no	no	0.923	0.252	0.366	6e-54
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.946	0.255	0.341	5e-50
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.943	0.175	0.323	7e-48
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.940	0.205	0.325	7e-45
Q9FG91	848	Probable disease resistan	no	no	0.795	0.330	0.276	3e-14
O81825	919	Probable disease resistan	no	no	0.610	0.233	0.287	5e-14
Q9T048	985	Disease resistance protei	no	no	0.625	0.223	0.267	9e-14

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  261 bits (668), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 149/348 (42%), Positives = 226/348 (64%), Gaps = 15/348 (4%)

Query: 9   KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM------SHEFDG 62
           + +VG+++ LEK++ L+  G N VR +GIWGMGG+GKTT+AR ++D +      S++FDG
Sbjct: 186 QNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDG 245

Query: 63  SSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLID 122
           + FL D++E  +K G + SLQ  LLS+LL    N   N  DG + + SRLR KKVL+++D
Sbjct: 246 ACFLKDIKE--NKRG-MHSLQNALLSELLREKAN-YNNEEDGKHQMASRLRSKKVLIVLD 301

Query: 123 DVADVEQ-LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCL 181
           D+ + +  L  L G  DWFG GS IIITTRD+HL++ + +  +Y++ AL   E+ +LF  
Sbjct: 302 DIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQ 359

Query: 182 KAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKI 241
            AF    P E + +L+   V YA GLPLA+ V  S L    + +W+S  E +K +  + I
Sbjct: 360 HAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGI 419

Query: 242 LGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTV 301
           +  L+IS+DGL+  ++ +FLD+ACF + E +DY+ +IL+SC      G+ +LI+KSL+ +
Sbjct: 420 IDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFI 479

Query: 302 RENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
            E +++ MHDL+Q+MG+ IV  Q   +PG RSRLW   +V  V+S NT
Sbjct: 480 SEYNQVQMHDLIQDMGKYIVNFQK--DPGERSRLWLAKEVEEVMSNNT 525

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  232 bits (591), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 128/342 (37%), Positives = 210/342 (61%), Gaps = 18/342 (5%)

Query: 10  ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
           E +G+ S+L +++ ++     D+R +GIWGM G+GKTTLA+ V+D MS EFD   F+ D 
Sbjct: 141 ERIGIYSKLLEIEKMINKQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDY 200

Query: 70  RERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ 129
            +   ++G    L++Q L +     +         ++++  RL +K+VL+++DDV     
Sbjct: 201 TKAIQEKGVYCLLEEQFLKE-----NAGASGTVTKLSLLRDRLNNKRVLVVLDDVRSPLV 255

Query: 130 LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP 189
           +    G  DWFG  S+IIIT++D+ + +L RV ++Y+++ LN  EA +LF L A      
Sbjct: 256 VESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMA 315

Query: 190 LEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQE------RLKRDPENKILG 243
            +   E++   +KYA+G PLA++     L+GR +   +   E      +LK  P    + 
Sbjct: 316 EQNLHEVSMKVIKYANGHPLALN-----LYGRELMGKKRPPEMEIAFLKLKECPPAIFVD 370

Query: 244 ILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRE 303
            ++ S+D L + EKNIFLD+ACF++ EN DYV ++L+ CGF P +GI VL+EKSL+T+ E
Sbjct: 371 AIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISE 430

Query: 304 NDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVL 345
           N R+ MH+L+Q++G+QI+ R++  +  RRSRLWE   + ++L
Sbjct: 431 N-RVRMHNLIQDVGRQIINRET-RQTKRRSRLWEPCSIKYLL 470

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  227 bits (578), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 125/346 (36%), Positives = 207/346 (59%), Gaps = 10/346 (2%)

Query: 10  ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
           +LVGME+ + K++ L+C  S  VR +GIWG  G+GKTT+AR +Y+     F+ S F+ +V
Sbjct: 183 DLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENV 242

Query: 70  RER-----CDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDV 124
           RE       D  G  + LQ++ LS LL   D  +R++      I  RL+ +KVL+++DDV
Sbjct: 243 RESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRVRHL----GAIEERLKSQKVLIILDDV 298

Query: 125 ADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAF 184
            ++EQL+ L  +  WFG  S I++TT+++ LL  H +  +Y++   +  EA  +FC  AF
Sbjct: 299 DNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAF 358

Query: 185 DTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGI 244
               P ++   LA  F   A  LPLA+ VL SF+ G+  ++W  +   LK   + ++  +
Sbjct: 359 KQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKV 418

Query: 245 LQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPI-IGISVLIEKSLLTVRE 303
           L++ +DGL + EK++FL +AC +  ++ +Y+ +++ +     +  G+ VL +KSL+   E
Sbjct: 419 LKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFE 478

Query: 304 NDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
           N R+ MH LL+++G+++VR+QS  EPG+R  L    +   VLS NT
Sbjct: 479 NGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNT 524

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  211 bits (537), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 125/341 (36%), Positives = 206/341 (60%), Gaps = 16/341 (4%)

Query: 12  VGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRE 71
           +G+ S+L +++ ++      +R +GIWGM G+GKTTLA+ V+D MS  FD S F+ D  +
Sbjct: 152 IGIYSKLLEIENMVNKQPIGIRCVGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDK 211

Query: 72  RCDKEGSVISLQKQLL--SDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ 129
              ++G    L++QLL  +D  ++  +S+R+          RL  K+VL+++DDV +   
Sbjct: 212 SIHEKGLYCLLEEQLLPGNDATIMKLSSLRD----------RLNSKRVLVVLDDVRNALV 261

Query: 130 LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP 189
                   DW G GS+IIIT+RD+ +  L  + ++Y+++ LN  EA +LF L A      
Sbjct: 262 GESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEARQLFLLSASIKEDM 321

Query: 190 LEEYL-ELAKCFVKYASGLPLAVDVLVSFLFGRP-VDQWRSTQERLKRDPENKILGILQI 247
            E+ L EL+   + YA+G PLA+ V    L G+  + +  +   +LKR P  KI+   + 
Sbjct: 322 GEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSEMETAFLKLKRRPPFKIVDAFKS 381

Query: 248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRL 307
           ++D L + EKNIFLD+ACF++ EN +YV ++L+ CGF P + I VL++K L+T+ EN R+
Sbjct: 382 TYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFFPHVEIDVLVDKCLVTISEN-RV 440

Query: 308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQN 348
           W+H L Q++G++I+  ++  +  RR RLWE   + ++L  N
Sbjct: 441 WLHKLTQDIGREIINGETV-QIERRRRLWEPWSIKYLLEYN 480

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  198 bits (503), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 118/346 (34%), Positives = 197/346 (56%), Gaps = 13/346 (3%)

Query: 10  ELVGMESRLEKLKFLMCTGSNDVRT-IGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA- 67
           +LVG+E+ +E +K ++C  S + R  +GIWG  G+GK+T+ R +Y  +S +F   +F+  
Sbjct: 182 DLVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITY 241

Query: 68  DVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV 127
                 D  G  +  +K+LLS++L   D  I +      ++  RL+ +KVL+L+DDV  +
Sbjct: 242 KSTSGSDVSGMKLRWEKELLSEILGQKDIKIEHF----GVVEQRLKQQKVLILLDDVDSL 297

Query: 128 EQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTY 187
           E L+ L GK +WFG GS II+ T+D  LLK H ++ +Y++E  +   A  + C  AF   
Sbjct: 298 EFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGKD 357

Query: 188 KPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQI 247
            P +++ ELA    K A  LPL + VL S L GR  + W     RL+      I+  L++
Sbjct: 358 SPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRV 417

Query: 248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKIL-DSCGFDPIIGISVLIEKSLLTVRENDR 306
           S+D L + ++++FL +AC +      YV  +L D+ GF      ++L EKSL+ +  +  
Sbjct: 418 SYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDNVGF------TMLTEKSLIRITPDGY 471

Query: 307 LWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           + MH+LL+++G++I R +S   PG+R  L    D+  V+++ T +E
Sbjct: 472 IEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVVTEKTGTE 517

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. 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. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  191 bits (485), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 110/340 (32%), Positives = 196/340 (57%), Gaps = 8/340 (2%)

Query: 11   LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVR 70
            ++GM+ ++E++  L+C  S DVR+IGIWG  G+GKTT+A  ++  +S +++    L D+ 
Sbjct: 816  MIGMDMQVEEILSLLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLH 875

Query: 71   ERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQL 130
            +  + +G   ++++  LS++L +  + IR      + + SRL+ K++L+++DDV D   +
Sbjct: 876  KEVEVKGH-DAVRENFLSEVLEVEPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDV 934

Query: 131  RGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPL 190
                G  ++FG GS II+T+R+  +  L +++ VY+++ L+  ++  L            
Sbjct: 935  DTFLGTLNYFGPGSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSP 994

Query: 191  EEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVD-QWRSTQERLKRDPENKILGILQISF 249
            E Y  L+   VK+++G P  +  L S      +D +W    + +K      I GI + S 
Sbjct: 995  EVYKTLSLELVKFSNGNPQVLQFLSS------IDREWNKLSQEVKTTSPIYIPGIFEKSC 1048

Query: 250  DGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWM 309
             GL + E+ IFLD+ACF+   ++D V+ +LD CGF   +G   L++KSLLT+ +++ + M
Sbjct: 1049 CGLDDNERGIFLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDM 1108

Query: 310  HDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
               +Q  G++IVR++S D PG RSRLW    + HV   +T
Sbjct: 1109 LSFIQATGREIVRQESADRPGDRSRLWNADYIRHVFINDT 1148

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  181 bits (459), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 110/338 (32%), Positives = 191/338 (56%), Gaps = 7/338 (2%)

Query: 8   PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA 67
           P E VG+ +RL +++ L+     D+R+IGIWGM G+GKTTLA+ V++ MS ++D S F+ 
Sbjct: 165 PAERVGIYARLLEIEKLLYKQHRDIRSIGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIE 224

Query: 68  DVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV 127
           +  E   KEG +  L K+ +  +L    +   +      +   +L  K++L+++DDV D 
Sbjct: 225 NFDEAFHKEG-LHRLLKERIGKILKDEFDIESSYIMRPTLHRDKLYDKRILVVLDDVRDS 283

Query: 128 EQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTY 187
                   + DWFG GS+IIIT+ D+ +    ++ ++Y ++ LN  EA +LF    F   
Sbjct: 284 LAAESFLKRLDWFGSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEALQLFSQSVFGIN 343

Query: 188 KPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQI 247
           +P +   +L+   + Y +G PLA+ +    L G+  +   +  E LK  P  KI  +L+ 
Sbjct: 344 EPEQNDRKLSMKVIDYVNGNPLALSIYGRELMGKKSEMETAFFE-LKHCPPLKIQDVLKN 402

Query: 248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRL 307
           ++  L + EKNI LD+A F+K E  +YV ++L+   + P + I VL++K +LT+ EN  +
Sbjct: 403 AYSALSDNEKNIVLDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTISENT-V 461

Query: 308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVL 345
            M++L+Q+  Q+I       E    +R+WE + + ++L
Sbjct: 462 QMNNLIQDTCQEIFN----GEIETCTRMWEPSRIRYLL 495

Arabidopsis thaliana (taxid: 3702)

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

 Score = 79.7 bits (195), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 88/318 (27%), Positives = 149/318 (46%), Gaps = 38/318 (11%)

Query: 30  NDVRTIGIWGMGGLGKTTLARVVYDL---MSHEFDGSSFLADVRERCDKEGSVISLQKQL 86
           +++RT+G++GMGG+GKTTL   + +    +  EFD   ++        K+  +  +Q Q+
Sbjct: 170 DEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVV-----VSKDFQLEGIQDQI 224

Query: 87  LSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMI 146
           L  L    +          ++I + L+ KK +LL+DD+     L  +         GS I
Sbjct: 225 LGRLRPDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSKI 284

Query: 147 IITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFD-TYKPLEEYLELAKCFVKYAS 205
           + TTR + + K  + ++  K++ L+ DEA+ LF L   D   +  ++   LA+       
Sbjct: 285 VFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCH 344

Query: 206 GLPLAVDVL-VSFLFGRPVDQWRSTQERLKRDP------ENKILGILQISFDGLKEAE-K 257
           GLPLA++V+  + +    V +WR     L          E +IL IL+ S+D LK  E K
Sbjct: 345 GLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIK 404

Query: 258 NIFLDVACFYK------------WENRDYVSKIL-----DSCGFDPIIGISVLIEKSLLT 300
             FL  + F +            W    Y++         + G+D IIG+  L+   LL 
Sbjct: 405 LCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYEDGGTNQGYD-IIGL--LVRAHLLI 461

Query: 301 VRE-NDRLWMHDLLQEMG 317
             E  D++ MHD+++EM 
Sbjct: 462 ECELTDKVKMHDVIREMA 479

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 81/282 (28%), Positives = 126/282 (44%), Gaps = 67/282 (23%)

Query: 31  DVRTIGIWGMGGLGKTTLAR-----------------VVYDLMSHEFDGSSFLADVRERC 73
           +V+ IG+WGMGG+GKTTL R                 V++  +S +FD      D+ +R 
Sbjct: 133 NVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRL 192

Query: 74  DKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDV---ADVEQL 130
            K        ++ ++ L             G+ +    +  K  LL++DDV    D++QL
Sbjct: 193 GKR-----FTREQMNQL-------------GLTICERLIDLKNFLLILDDVWHPIDLDQL 234

Query: 131 R---GLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFC-----LK 182
                L   +D     S +++T+R   + +     E  K+  L   EA+ LFC     + 
Sbjct: 235 GIPLALERSKD-----SKVVLTSRRLEVCQQMMTNENIKVACLQEKEAWELFCHNVGEVA 289

Query: 183 AFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRP-VDQWRSTQERLKR-----D 236
             D  KP      +AK       GLPLA+  +   L G+P V+ W+ T   LKR     D
Sbjct: 290 NSDNVKP------IAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPSID 343

Query: 237 PENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKI 278
            E KI G L++S+D L++  K+ FL  A F +    DY  K+
Sbjct: 344 TEEKIFGTLKLSYDFLQDNMKSCFLFCALFPE----DYSIKV 381

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 = 78.2 bits (191), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 70/262 (26%), Positives = 120/262 (45%), Gaps = 42/262 (16%)

Query: 29  SNDVRTIGIWGMGGLGKTTLAR-----------------VVYDLMSHEFDGSSFLADVRE 71
           S   + IG+WGMGG+GKTTL R                 V++ ++S EFD       + E
Sbjct: 161 SEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAE 220

Query: 72  RCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLR 131
           R D +  +   +++L            R +Y G+      ++ +K LL++DDV     L 
Sbjct: 221 RLDIDTQMEESEEKL-----------ARRIYVGL------MKERKFLLILDDVWKPIDLD 263

Query: 132 GLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLE 191
            L   R     GS +I+T+R   + +  + +   +++ L  ++A+ LFC  A D  +  +
Sbjct: 264 LLGIPRTEENKGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRS-D 322

Query: 192 EYLELAKCFVKYASGLPLAVDVLVSFLFGRP-VDQWRSTQERLKRDP------ENKILGI 244
              ++AK   +   GLPLA+  + + + G+  V  W     +L +        E KI   
Sbjct: 323 HVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPWIKSIEEKIFQP 382

Query: 245 LQISFDGLKEAEKNIFLDVACF 266
           L++S+D L++  K  FL  A F
Sbjct: 383 LKLSYDFLEDKAKFCFLLCALF 404

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	352
255547494	1082	TMV resistance protein N, putative [Rici	0.968	0.315	0.571	1e-102
255547496	1097	ATP binding protein, putative [Ricinus c	0.985	0.316	0.54	3e-95
255582274	943	leucine-rich repeat-containing protein,	0.960	0.358	0.573	5e-92
255579570	1116	TMV resistance protein N, putative [Rici	0.968	0.305	0.543	7e-91
224126759	515	tir-nbs-lrr resistance protein [Populus	0.985	0.673	0.489	1e-90
359495289	1133	PREDICTED: TMV resistance protein N-like	0.960	0.298	0.511	1e-88
224060459	524	tir-nbs-lrr resistance protein [Populus	0.985	0.662	0.487	2e-88
356560337	1289	PREDICTED: TMV resistance protein N-like	0.954	0.260	0.485	2e-87
37574597	1095	TIR-NBS-LRR type R protein 7 [Malus bacc	0.980	0.315	0.474	5e-86
342365839	1061	TIR-NBS-LRR type disease resistance prot	0.971	0.322	0.471	8e-86

>gi|255547494|ref|XP_002514804.1| TMV resistance protein N, putative [Ricinus communis] gi|223545855|gb|EEF47358.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/345 (57%), Positives = 255/345 (73%), Gaps = 4/345 (1%)

Query: 9   KELVGMESRL-EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA 67
           K  VGM SRL E +K+L    S+DVR +GI GMGG+GKTT+AR VY  +S EF+GS FLA
Sbjct: 187 KNFVGMNSRLNEMMKYLGKRESDDVRFVGICGMGGIGKTTIARAVYAELSSEFEGSCFLA 246

Query: 68  DVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV 127
           +VRE   +E + +SLQ+QLLS+ LM    ++ +++ G N I +RL HKKVL+++DDV  +
Sbjct: 247 NVREV--EEKNSLSLQEQLLSETLMERKITVWDIHAGRNEIKNRLSHKKVLIILDDVNHL 304

Query: 128 EQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTY 187
           EQL+ L G  DWFG GS IIITTRDEHLL  H VE +Y++  LN DEA RLF LKAF   
Sbjct: 305 EQLKSLAGMSDWFGNGSRIIITTRDEHLLLCHGVERIYRVGGLNHDEALRLFSLKAFKND 364

Query: 188 KPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQI 247
            P ++Y+EL+  FV YA+GLPLA+DVL S L+GR +++W+S  +RLK  P  +IL  L I
Sbjct: 365 YPADDYVELSNHFVNYANGLPLALDVLGSCLYGRSINEWQSALDRLKEIPNKRILDKLYI 424

Query: 248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRL 307
           SF+GL+E EK +FLD+ACF+K E++ YV K+L+SCGF   IGI VL+ KSL+T+  NDR+
Sbjct: 425 SFEGLQEIEKKVFLDIACFFKGEDKHYVVKVLESCGFYAEIGIRVLLSKSLITI-TNDRI 483

Query: 308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           WMHDLLQEMG+ IVRR   +EPGRRSRLW   DVSHVLS +T +E
Sbjct: 484 WMHDLLQEMGRDIVRRSCYEEPGRRSRLWLYKDVSHVLSNDTGTE 528

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547496|ref|XP_002514805.1| ATP binding protein, putative [Ricinus communis] gi|223545856|gb|EEF47359.1| ATP binding protein, putative [Ricinus communis]

 Score =  354 bits (909), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 189/350 (54%), Positives = 259/350 (74%), Gaps = 3/350 (0%)

Query: 4   ELEIPKELVGMESRLEKLKFLMCTGS-NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDG 62
           E    K  VGM SRL ++   +  G  +DV+ IGI GMGG+GKTT+AR V++ +S +F+G
Sbjct: 182 ESSAAKNFVGMNSRLVEMSMCLDMGQLDDVQFIGICGMGGIGKTTIARFVHEELSSQFEG 241

Query: 63  SSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLID 122
           SSFLA+VRE  +K G ++ LQKQLLS++L+  + +I N + G+  I +RL HK+VL+++D
Sbjct: 242 SSFLANVREVEEKRG-LVHLQKQLLSEILLDRNITICNAFGGMTEISNRLAHKRVLIILD 300

Query: 123 DVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLK 182
           DV  ++QL+ L G  DWFG GS II+T+RDEHLLK H V+++Y++E L  DEA  LFCLK
Sbjct: 301 DVNQLDQLKMLAGMHDWFGKGSRIIVTSRDEHLLKCHGVDKIYRVEGLGRDEALHLFCLK 360

Query: 183 AFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKIL 242
           AF    P+E++LEL+  FV Y +GLPLA+DV  SFLFG+ + +WRS  +RLK  P  +IL
Sbjct: 361 AFRNDHPIEDFLELSNQFVNYCNGLPLALDVFGSFLFGKSLSEWRSALDRLKEIPNQEIL 420

Query: 243 GILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVR 302
             L ISFDGL+E EK +FLD+ACF+  E+RDYV ++LDSCG  P  GISVL+ KSL+T+ 
Sbjct: 421 DKLNISFDGLEEMEKKLFLDIACFFNGEDRDYVYEVLDSCGLYPDFGISVLVSKSLITIS 480

Query: 303 ENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           + +R+WMHDLLQE+G+ IVRR+S +EPG+RSRLW   D+ HVLS +T +E
Sbjct: 481 K-ERIWMHDLLQELGRDIVRRESQEEPGKRSRLWLYKDIRHVLSNDTGTE 529

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582274|ref|XP_002531928.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223528407|gb|EEF30442.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  343 bits (881), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 195/340 (57%), Positives = 261/340 (76%), Gaps = 2/340 (0%)

Query: 10  ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
           +LVG++SRLE+L   +  G NDVR IGI GMGG+GKTT+A   Y+ MS +F+G +FLA+V
Sbjct: 12  DLVGLDSRLEELHSHVGIGQNDVRIIGICGMGGIGKTTIATAYYNWMSIQFEGRAFLANV 71

Query: 70  RERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ 129
           RE   K G ++SLQ+QLLS++LM     I NVY+G +MI SRLR+K+VL++IDDV  + Q
Sbjct: 72  REVSSK-GRLLSLQEQLLSEILMGKKVKIWNVYNGTDMIKSRLRYKRVLVVIDDVNQLSQ 130

Query: 130 LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP 189
           L+ L GK DWFG GS +IITTRDEHLL  H V+E+YK++ LN  EA +LF LKAF    P
Sbjct: 131 LQNLAGKSDWFGPGSRVIITTRDEHLLISHGVDEIYKVKGLNKSEALQLFSLKAFRNNHP 190

Query: 190 LEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISF 249
            ++Y+ L+   V YA+GLPLA++VL SFLF R +++ R+  +R+K  P+++IL  LQISF
Sbjct: 191 QKDYMTLSTDIVYYANGLPLALEVLGSFLFNRTLEESRNALDRIKEIPKDEILDALQISF 250

Query: 250 DGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWM 309
           DGL+E EK IFLD+ACF+K +N D+++KILD CGF P IGI VLIEKSL+T+   +RLWM
Sbjct: 251 DGLEEMEKQIFLDIACFFKGKNIDHITKILDGCGFYPDIGIRVLIEKSLITIV-GERLWM 309

Query: 310 HDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
           HDLLQEMG ++V+++SP+EPGRRSRLW   D+ HVL++NT
Sbjct: 310 HDLLQEMGWKLVQQESPEEPGRRSRLWLYKDIFHVLTKNT 349

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579570|ref|XP_002530627.1| TMV resistance protein N, putative [Ricinus communis] gi|223529837|gb|EEF31770.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  340 bits (872), Expect = 7e-91,   Method: Compositional matrix adjust.
 Identities = 187/344 (54%), Positives = 259/344 (75%), Gaps = 3/344 (0%)

Query: 10  ELVGMESRLEKLKFLMCTGS-NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
           + VGM SRL ++   +  G  NDV  IGI GMGG+GKTT+ARVVY+ ++ +F+GSSFLA+
Sbjct: 187 DFVGMNSRLVEMSMYLDMGRLNDVLFIGISGMGGIGKTTIARVVYEELASQFEGSSFLAN 246

Query: 69  VRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE 128
           VRE  +K G ++ LQ+QLLS++LM  + +I + + G + I +R+  K+VLL++DDV  +E
Sbjct: 247 VREVKEKHG-LVPLQQQLLSEILMDGNIAIWDAHCGTSEIVNRMCKKRVLLILDDVNQLE 305

Query: 129 QLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYK 188
           QL+ L G+ DWFG GS IIITTRDEHLLK H V+++YK++ L+ DE+  LFCL+AF +  
Sbjct: 306 QLKLLAGRHDWFGSGSRIIITTRDEHLLKCHGVDKIYKVQGLSQDESIHLFCLRAFKSDY 365

Query: 189 PLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQIS 248
           P ++Y+EL+  FV Y +GLPLA+DVL SFLF + V++W S   RLK+ P  +IL  L IS
Sbjct: 366 PADDYVELSNEFVNYCNGLPLALDVLGSFLFDKSVNEWTSALRRLKQIPNQEILEKLFIS 425

Query: 249 FDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLW 308
           FDGL+E EK IFLD+ACF+  E++DYV K+L+S GF P +GI  LI KSL+T+ + +R+W
Sbjct: 426 FDGLEEVEKKIFLDIACFFNGEDKDYVIKVLESRGFYPHVGIRDLINKSLITISK-ERIW 484

Query: 309 MHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           MHDLLQEMG++IVR++S +EPG+RSRLW   DV HVLS +T +E
Sbjct: 485 MHDLLQEMGREIVRQESQEEPGKRSRLWLYEDVYHVLSNDTGTE 528

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126759|ref|XP_002329466.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870146|gb|EEF07277.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 171/349 (48%), Positives = 252/349 (72%), Gaps = 2/349 (0%)

Query: 2   NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD 61
           ++ L +    VG++ R+E+L  ++  GS++V  +GI G+GG GKTT+A+ VY+L++++F+
Sbjct: 166 HTSLHVAAYQVGLDQRIEELIHMLNIGSSNVCMVGICGLGGSGKTTVAKAVYNLINNQFE 225

Query: 62  GSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLI 121
              FL++VRE   + G ++ LQ++LL ++L      + +V  G+N+I  RLRHKKVL++I
Sbjct: 226 ACCFLSNVREFSKRYG-LVHLQEKLLFEILGDKTLVLGSVDRGINVIKDRLRHKKVLIVI 284

Query: 122 DDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCL 181
           DDV  ++QL+ + G+RDWFGLGS IIITTRDE LL  H VE + +++ L  D+A  LFC 
Sbjct: 285 DDVDHLDQLKQIAGERDWFGLGSKIIITTRDERLLVFHGVERLLRVKELCCDDALMLFCW 344

Query: 182 KAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKI 241
            AF    P  +YLE++   VKY+ GLPLA+ VL SFL+GR + +  S  ++L+R P  +I
Sbjct: 345 HAFRNSHPPIDYLEISDQVVKYSKGLPLALVVLGSFLYGRSIPERESELDKLRRIPNKQI 404

Query: 242 LGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTV 301
             +L+ISFDGL+  E+ IFLD+ACF+K + +DYV KILD+C FDP+IGI VL+EKSL+ +
Sbjct: 405 YEVLKISFDGLEHHERAIFLDIACFFKGQEKDYVIKILDACDFDPVIGIQVLMEKSLVYI 464

Query: 302 RENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTV 350
            EN++L MHDLLQ MG+Q+V ++SP+ PGRRSRLW   D+ HVL++N V
Sbjct: 465 -ENNKLQMHDLLQWMGRQVVHQESPNVPGRRSRLWFHEDILHVLTENMV 512

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495289|ref|XP_002276927.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  332 bits (852), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 176/344 (51%), Positives = 243/344 (70%), Gaps = 6/344 (1%)

Query: 9   KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
           + LVG+ES + ++K L+ T S DVR +GIWGMGG+GKTTLAR VY+ +SH+F+   FL +
Sbjct: 219 QNLVGIESSIREIKSLLFTESLDVRMVGIWGMGGIGKTTLARAVYNQISHQFEACCFLEN 278

Query: 69  VRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE 128
           V +  +K+   +SLQK+ LS LL   D ++     G   I + L  KKVL++IDDV + +
Sbjct: 279 VSDYLEKQ-DFLSLQKKYLSQLL--EDENLNT--KGCISIKALLCSKKVLIVIDDVNNSK 333

Query: 129 QLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYK 188
            L  L GK  WFG+GS IIITTR++ LL  H V EVY+ E LN D A  LF   AF    
Sbjct: 334 ILEDLIGKHGWFGIGSRIIITTRNKQLLVTHGVNEVYQAEKLNDDNAVELFSRYAFKKAH 393

Query: 189 PLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQIS 248
           P+++Y+EL++C V YA GLPLA+ VL SFLF +   QW S  ++LK+ P+ +I  +L++S
Sbjct: 394 PIDDYVELSQCIVVYAQGLPLALRVLGSFLFDKSKRQWESQLDKLKKIPKKEIQDVLRVS 453

Query: 249 FDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLW 308
           FDGL++ E++IFLD+ACF++  ++DYV +I  SCGF P IGI VLIEKSL++V EN +L 
Sbjct: 454 FDGLEDNERDIFLDIACFFQGHDKDYVMEIFRSCGFFPDIGIRVLIEKSLISVVEN-KLM 512

Query: 309 MHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           MH+LLQ+MG++IVR  SP EPG+RSRLW   DV+HVL++ T +E
Sbjct: 513 MHNLLQKMGREIVREASPKEPGKRSRLWIHDDVNHVLTKKTGTE 556

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224060459|ref|XP_002300210.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222847468|gb|EEE85015.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  332 bits (850), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 170/349 (48%), Positives = 252/349 (72%), Gaps = 2/349 (0%)

Query: 2   NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD 61
           ++ L I    VG+ + +E++  ++ T S+ V  +G+ G+GG+GKTT+++ VY+L++++F+
Sbjct: 166 HTSLHIAAYQVGLNNHIEEINHMLNTRSDGVCMVGLCGIGGVGKTTISKAVYNLIANQFE 225

Query: 62  GSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLI 121
           GS FL++VRE   K+  ++ LQ+ LL ++L   +  + +V  G+N+I  RLR+KKVL++I
Sbjct: 226 GSCFLSNVRE-ISKQHGLLRLQETLLYEILGDKNLVLGSVDRGINVIRDRLRNKKVLIVI 284

Query: 122 DDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCL 181
           DD  +++QL+ L G+ DWFGLGS +IITTRDEHLL  H VE +YK++ L  D+A  LF  
Sbjct: 285 DDADNLDQLKQLAGEPDWFGLGSRVIITTRDEHLLVAHGVERLYKVKELCPDDALMLFSW 344

Query: 182 KAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKI 241
            AF    P E++LE++   V+YA GLPLA+ VL +FL+GR + +W S  +RLKR P  +I
Sbjct: 345 NAFRNPHPSEDHLEVSLRAVRYAQGLPLALVVLGAFLYGRSIREWESELDRLKRIPNKQI 404

Query: 242 LGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTV 301
             +L+ISFDGL+  EK IFLD+A F+K + +DYV KILD+C  +P IGI VLIEKSL+ +
Sbjct: 405 YEVLKISFDGLEYHEKTIFLDIARFFKGQEKDYVIKILDACDVNPDIGIQVLIEKSLIYI 464

Query: 302 RENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTV 350
            EN+++ MH+LLQ MG+QIV ++SP+ PGRRSRLW   DV HVL++N V
Sbjct: 465 -ENNKIQMHELLQSMGRQIVHQESPNIPGRRSRLWFHEDVLHVLTENIV 512

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560337|ref|XP_003548449.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  328 bits (842), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 164/338 (48%), Positives = 240/338 (71%), Gaps = 2/338 (0%)

Query: 11  LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVR 70
           LVG++SR++++  LM    NDVR IG+WGMGG+GKTT+AR VY+ +  +F+ S FL ++R
Sbjct: 192 LVGIDSRMKEVYSLMGISLNDVRFIGLWGMGGIGKTTIARFVYEAIKGDFNVSCFLENIR 251

Query: 71  ERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQL 130
           E   K   ++ +QK+LL  L + + +   N++DG N+I + L +KK+LL++DDV+++ QL
Sbjct: 252 E-VSKTNGLVHIQKELLFHLNVRSSD-FYNLHDGKNIIANSLSNKKILLVLDDVSELSQL 309

Query: 131 RGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPL 190
             L GK++WFG GS +IITTRD+HLLK H V    K + L  +EA +LFCLKAF   +P 
Sbjct: 310 ENLAGKQEWFGSGSRVIITTRDKHLLKTHGVHLTCKAKGLAQNEALKLFCLKAFKQDQPK 369

Query: 191 EEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFD 250
           EEYL L K  V+YA GLPLA++VL S L+GR V+ W S  E+++  P +KI   L+IS+D
Sbjct: 370 EEYLNLCKEVVEYARGLPLALEVLGSHLYGRTVEVWHSALEQIRSFPHSKIQDTLKISYD 429

Query: 251 GLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMH 310
            L+   + +FLD+ACF+K  + D V  IL +CG+ P IGI +LIE+ L+T+    +L MH
Sbjct: 430 SLQPPYQKMFLDIACFFKGMDIDEVKNILKNCGYHPEIGIDILIERCLVTLDRMKKLGMH 489

Query: 311 DLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQN 348
           DLLQEMG+ IV ++SP++PG+RSRLW + D+ +VL++N
Sbjct: 490 DLLQEMGRNIVFQESPNDPGKRSRLWSQKDIDYVLTKN 527

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37574597|gb|AAQ93075.1| TIR-NBS-LRR type R protein 7 [Malus baccata]

 Score =  324 bits (830), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 166/350 (47%), Positives = 245/350 (70%), Gaps = 5/350 (1%)

Query: 3   SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDG 62
           ++L + K  VG+ SR++ +   + +G ++V  +GIWGMGGLGKTT A+ +Y+ + HEF  
Sbjct: 205 NKLRVAKHQVGINSRIQDIISRLSSGGSNVIMVGIWGMGGLGKTTAAKAIYNQIHHEFQF 264

Query: 63  SSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLID 122
            SFL DV     K G ++ LQK+L+ D+L    + I +V +G+ +I  + RH++VL+++D
Sbjct: 265 KSFLPDVGNAASKHG-LVYLQKELIYDILK-TKSKISSVDEGIGLIEDQFRHRRVLVIMD 322

Query: 123 DVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLK 182
           ++ +V QL  + G  DWFG GS IIITTRDEHLLK  +V++ Y  + L+  EA  LF   
Sbjct: 323 NIDEVGQLDAIVGNPDWFGPGSRIIITTRDEHLLK--QVDKTYVAQKLDEREALELFSWH 380

Query: 183 AFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKIL 242
           AF    P EEYLEL++  V Y  GLPLA++VL SFLF RP+ +W+S  E+LKR PE KI+
Sbjct: 381 AFGNNWPNEEYLELSEKVVSYCGGLPLALEVLGSFLFKRPIAEWKSQLEKLKRTPEGKII 440

Query: 243 GILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVR 302
             L+ISF+GL +A+K IFLD++CF+  E++DYV+K+LD CGF   IGISVL E+ L+TV 
Sbjct: 441 KSLRISFEGLDDAQKAIFLDISCFFIGEDKDYVAKVLDGCGFYATIGISVLRERCLVTV- 499

Query: 303 ENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
           E+++L MHDLL+EM + I+  +SP +PG+ SRLW++ +V +VL+  + +E
Sbjct: 500 EHNKLNMHDLLREMAKVIISEKSPGDPGKWSRLWDKREVINVLTNKSGTE 549

Source: Malus baccata

Species: Malus baccata

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|342365839|gb|AEL30372.1| TIR-NBS-LRR type disease resistance protein [Arachis hypogaea]

 Score =  323 bits (828), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 166/352 (47%), Positives = 238/352 (67%), Gaps = 10/352 (2%)

Query: 9   KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
           + L GM SR+E +  LMC G +DVR  GIWGMGG+GKTT+AR +Y+ +  +F  S FLA+
Sbjct: 194 ENLFGMASRVEDVTTLMCIGLSDVRFTGIWGMGGVGKTTIARAIYEAIEDQFQISCFLAN 253

Query: 69  VRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE 128
           +R+ C+  G ++ LQK +L + + ++  +  N+YDG+ +I + L +KKVL+++DDV DV 
Sbjct: 254 IRDTCETNG-ILQLQK-ILGEHIHVSRCTFSNLYDGMRIIRNSLCNKKVLIVLDDVNDVS 311

Query: 129 QLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYK 188
           QL  L G +DWFG GS ++ITTRD HLLK H V + Y++E L+  EA R FC KAF    
Sbjct: 312 QLENLAGNQDWFGPGSRVMITTRDMHLLKTHEVCDTYEVECLDKTEALRFFCSKAFKRDV 371

Query: 189 PLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQIS 248
           P E YLE++   VKY  GLPLA+ VL S+L+GR +  WRS  ++L+   + KIL  L+IS
Sbjct: 372 PEEGYLEMSHEVVKYTGGLPLALKVLGSYLYGRNISAWRSAVKKLRSVSDAKILETLRIS 431

Query: 249 FDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVREN---- 304
           +DGL   +K IFLD+ACF+K + +D V  + +  G++P I I VLIE+SL+TV+++    
Sbjct: 432 YDGLDSMQKEIFLDIACFFKGKPKDKVLDLFEKRGYNPQIDIDVLIERSLVTVKQDIDVF 491

Query: 305 ----DRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
               D L MHDLLQEMG+  V ++SP+ P +RSRLW   D+  +L+QN  +E
Sbjct: 492 KKKFDVLEMHDLLQEMGRNFVIQESPNYPSKRSRLWSPEDLDLMLTQNKGTE 543

Source: Arachis hypogaea

Species: Arachis hypogaea

Genus: Arachis

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	352
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.963	0.261	0.429	9.9e-67
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.963	0.284	0.446	2.3e-65
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.946	0.291	0.405	1.3e-62
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.977	0.248	0.343	3.9e-56
TAIR|locus:2155347	1372	TTR1 "TOLERANT TO TOBACCO RING	0.951	0.244	0.371	3.5e-55
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.940	0.212	0.361	2.7e-52
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.988	0.386	0.345	3e-52
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.954	0.306	0.343	8.5e-52
TAIR|locus:2151491	1123	AT5G46450 [Arabidopsis thalian	0.960	0.300	0.355	6.6e-51
TAIR|locus:2153072	1229	AT5G51630 [Arabidopsis thalian	0.954	0.273	0.350	9.9e-50

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 688 (247.2 bits), Expect = 9.9e-67, P = 9.9e-67
 Identities = 147/342 (42%), Positives = 212/342 (61%)

Query:     9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
             K L+GM S ++ L+ ++     DVR +GIWGMGG+GKTT+A+ +Y+ +S +F    F+ +
Sbjct:   183 KGLIGMSSHMDFLQSMISIVDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMEN 242

Query:    69 VRERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE 128
             V+E C++ G V               D    +     N+I  R RHK V +++DDV   E
Sbjct:   243 VKEVCNRYG-VRRLQVEFLCRMFQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRSE 301

Query:   129 QLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYK 188
             QL  L  +  WFG GS II+TTRD HLL  H +  VYK++ L   EA +LFC  AF    
Sbjct:   302 QLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREEI 361

Query:   189 PLEE-YLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQI 247
              L   + EL+   V YASGLPLA+ VL SFL+ R   +W ST  RLK  P + I+ +L++
Sbjct:   362 ILPHGFEELSVQAVNYASGLPLALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRV 421

Query:   248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRL 307
             S+DGL E EK IFL ++CFY  +  DYV K+LD CG+   IGI++L EKSL+ V  N  +
Sbjct:   422 SYDGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLCGYAAEIGITILTEKSLI-VESNGCV 480

Query:   308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
              +HDLL++MG+++VR+Q+ + P +R  LW+  D+ H+LS+N+
Sbjct:   481 KIHDLLEQMGRELVRQQAVNNPAQRLLLWDPEDICHLLSENS 522

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 674 (242.3 bits), Expect = 2.3e-65, P = 2.3e-65
 Identities = 155/347 (44%), Positives = 214/347 (61%)

Query:     5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSS 64
             L +P   VG+ SRL+ +  L+  GS+ VR I I+GMGG+GKTTLA+V ++  SH F+GSS
Sbjct:   185 LHVPSYAVGLRSRLQHISSLLSIGSDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSS 244

Query:    65 FLADVRERCDK-EGSVIXXXXXXXXXXXXXADNSIRNVYDGVN-MIGSRLRHKKVLLLID 122
             FL + RE   K EG                  N I   + G++  +  R R K+VLL++D
Sbjct:   245 FLENFREYSKKPEGRT---HLQHQLLSDILRRNDIE--FKGLDHAVKERFRSKRVLLVVD 299

Query:   123 DVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLK 182
             DV DV QL      RD FG GS IIITTR+ HLLK  R E  Y  + L+ DE+  LF   
Sbjct:   300 DVDDVHQLNSAAIDRDCFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWH 359

Query:   183 AFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKIL 242
             AF T +P +E+L+ ++  V Y +GLPLAV+VL +FL  R + +W ST + LKR P + I 
Sbjct:   360 AFRTSEPPKEFLQHSEEVVTYCAGLPLAVEVLGAFLIERSIREWESTLKLLKRIPNDNIQ 419

Query:   243 GILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVR 302
               LQISF+ L   +K++FLD+ACF+   +  YV+ ILD C   P I +S+L+E+ L+T+ 
Sbjct:   420 AKLQISFNALTIEQKDVFLDIACFFIGVDSYYVACILDGCNLYPDIVLSLLMERCLITIS 479

Query:   303 ENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
              N+ + MHDLL++MG+QIVR  SP + G RSRLW   DV  VL + +
Sbjct:   480 GNN-IMMHDLLRDMGRQIVREISPKKCGERSRLWSHNDVVGVLKKKS 525

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 648 (233.2 bits), Expect = 1.3e-62, P = 1.3e-62
 Identities = 141/348 (40%), Positives = 218/348 (62%)

Query:     9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM------SHEFDG 62
             + +VG+++ LEK++ L+  G N VR +GIWGMGG+GKTT+AR ++D +      S++FDG
Sbjct:   186 QNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDG 245

Query:    63 SSFLADVRERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLID 122
             + FL D++E  +K G                A+ +  N  DG + + SRLR KKVL+++D
Sbjct:   246 ACFLKDIKE--NKRGMHSLQNALLSELLREKANYN--NEEDGKHQMASRLRSKKVLIVLD 301

Query:   123 DVADVEQ-LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCL 181
             D+ + +  L  L G  DWFG GS IIITTRD+HL++ + +  +Y++ AL   E+ +LF  
Sbjct:   302 DIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQ 359

Query:   182 KAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKI 241
              AF    P E + +L+   V YA GLPLA+ V  S L    + +W+S  E +K +  + I
Sbjct:   360 HAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGI 419

Query:   242 LGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTV 301
             +  L+IS+DGL+  ++ +FLD+ACF + E +DY+ +IL+SC      G+ +LI+KSL+ +
Sbjct:   420 IDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFI 479

Query:   302 RENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
              E +++ MHDL+Q+MG+ IV  Q   +PG RSRLW   +V  V+S NT
Sbjct:   480 SEYNQVQMHDLIQDMGKYIVNFQK--DPGERSRLWLAKEVEEVMSNNT 525

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 590 (212.7 bits), Expect = 3.9e-56, P = 3.9e-56
 Identities = 120/349 (34%), Positives = 211/349 (60%)

Query:     2 NSELEIPKELVGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF 60
             N+  ++ + +VG+ES L+ L  L+ T  S+ V+ +G++GMGG+GKTTLA+  Y+ +   F
Sbjct:   180 NTPEKVGEFIVGLESPLKDLTGLIDTESSSGVQVLGLYGMGGIGKTTLAKAFYNKIVGNF 239

Query:    61 DGSSFLADVRERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLL 120
             +  +F++D+RER   E  ++                 I +V  G+  I + +  KK++++
Sbjct:   240 EQRAFISDIRERSSAENGLVTLQKTLIKELFRLVPE-IEDVSIGLEKIKANVHEKKIIVV 298

Query:   121 IDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFC 180
             +DDV  ++Q+  L G+  W+G G++I+ITTRD  +L    V + Y+++ L   +A +LF 
Sbjct:   299 LDDVDHIDQVHALVGETRWYGQGTLIVITTRDSEILSKLSVNQQYEVKCLTEPQALKLFS 358

Query:   181 LKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQ-WRSTQERLKRDPEN 239
               +    +P +  L L+K  V+ +  LPLAV+V  S L+ +  ++ W++  ++LK+    
Sbjct:   359 YHSLRKEEPTKNLLALSKKIVQISGLLPLAVEVFGSLLYDKKEEKDWQTQLDKLKKTQPG 418

Query:   240 KILGILQISFDGLKEAEKNIFLDVAC-FYKWE-NRDYVSKILDSCGFDPIIGISVLIEKS 297
              +  +L++SF  L + EK +FLD+AC F K E  +D V  +L  CG +    +SVL +KS
Sbjct:   419 NLQDVLELSFKSLDDEEKKVFLDIACLFLKMEIKKDEVVIVLKGCGLNAEAALSVLRQKS 478

Query:   298 LLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLS 346
             L+ +  ND LWMHD +++MG+Q+V ++S ++PG RSRLW+  ++  VL+
Sbjct:   479 LVKILANDTLWMHDQIRDMGRQMVLKESREDPGLRSRLWDRGEIMTVLN 527

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2155347 TTR1 "TOLERANT TO TOBACCO RINGSPOT NEPOVIRUS 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 581 (209.6 bits), Expect = 3.5e-55, P = 3.5e-55
 Identities = 128/345 (37%), Positives = 208/345 (60%)

Query:    10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
             E +G+ S+L +++ ++     D+R +GIWGM G+GKTTLA+ V+D MS EFD   F+ D 
Sbjct:   141 ERIGIYSKLLEIEKMINKQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDY 200

Query:    70 RERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ 129
              +   ++G V              A  ++  +    +++  RL +K+VL+++DDV     
Sbjct:   201 TKAIQEKG-VYCLLEEQFLKENAGASGTVTKL----SLLRDRLNNKRVLVVLDDVRSPLV 255

Query:   130 LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP 189
             +    G  DWFG  S+IIIT++D+ + +L RV ++Y+++ LN  EA +LF L A      
Sbjct:   256 VESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMA 315

Query:   190 LEEYLELAKCFVKYASGLPLAVDVLVSFLFG--RPVDQWRSTQERLKRDPENKILGILQI 247
              +   E++   +KYA+G PLA+++    L G  RP +       +LK  P    +  ++ 
Sbjct:   316 EQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEM-EIAFLKLKECPPAIFVDAIKS 374

Query:   248 SFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRL 307
             S+D L + EKNIFLD+ACF++ EN DYV ++L+ CGF P +GI VL+EKSL+T+ EN R+
Sbjct:   375 SYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISEN-RV 433

Query:   308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
              MH+L+Q++G+QI+ R++  +  RRSRLWE   + ++L     +E
Sbjct:   434 RMHNLIQDVGRQIINRETR-QTKRRSRLWEPCSIKYLLEDKEQNE 477

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009615 "response to virus" evidence=IMP

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

TAIR|locus:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 555 (200.4 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 123/340 (36%), Positives = 200/340 (58%)

Query:    12 VGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSS-FLADV 69
             VG+ES ++ L  L  T  S+ ++ +G++GMGG+GKTTLA+  Y+ +   F+    F+  V
Sbjct:   363 VGLESPIKDLMKLFNTESSSGIQVMGLYGMGGIGKTTLAKAFYNKIIVNFNRHRVFIESV 422

Query:    70 RERC-DKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE 128
             R +  D++G V               +  I +V  G+  I   +  KK+++++DDV  ++
Sbjct:   423 RGKSSDQDGLVNLQKTLIKELFRLVPE--IEDVSIGLEKIKENVHEKKIIVVLDDVDHID 480

Query:   129 QLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYK 188
             Q+  L G+  W+G GS+I+ITTRD  +L    V + Y+++ L   +A +LF   +    K
Sbjct:   481 QVNALVGETSWYGEGSLIVITTRDSEILSKLSVNQQYEVKCLTEPQALKLFSFYSLRKEK 540

Query:   189 P-LEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQI 247
             P  +  LEL+K   +    LPLAV V  S  + +  ++W+   E+LK   ++K+ G+L +
Sbjct:   541 PPTQGLLELSKKIAEVTGLLPLAVKVFGSHFYDKDENEWQVELEKLKTQ-QDKLHGVLAL 599

Query:   248 SFDGLKEAEKNIFLDVAC-FYKWE-NRDYVSKILDSCGFDPIIGISVLIEKSLLTVREND 305
             SF  L E EK IFLD+AC F K +  ++ V  IL  CG +    + VLI+KSLLT+  +D
Sbjct:   600 SFKSLDEEEKKIFLDIACLFLKMDITKEEVVDILKGCGLNAEAALRVLIQKSLLTILTDD 659

Query:   306 RLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVL 345
              LWMHD +++MG+Q+V ++S D+P  RSRLW+  ++ +VL
Sbjct:   660 TLWMHDQIRDMGRQMVHKESSDDPEMRSRLWDRGEIMNVL 699

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 548 (198.0 bits), Expect = 3.0e-52, P = 3.0e-52
 Identities = 122/353 (34%), Positives = 201/353 (56%)

Query:     1 MNSELEIPK-ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE 59
             +NS L      LVG+++ + +L  L+C  S +V+ +GIWG  G+GKTT+AR +++ +S  
Sbjct:   175 LNSTLSRDSYNLVGIDNHMRELDSLLCLESTEVKMVGIWGPAGIGKTTIARALFNRLSEN 234

Query:    60 FDGSSFLADVR--ERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKV 117
             F  + F+ +V+   R  +  +                D+    ++D + ++  RL+  KV
Sbjct:   235 FQHTIFMENVKGSSRTSELDAYGFQLRLQEQFLSEVIDHKHMKIHD-LGLVKERLQDLKV 293

Query:   118 LLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFR 177
             L+++DDV  +EQL  L  +  WFG GS II+TT ++ LL+ H +  +Y+L   +  ++ +
Sbjct:   294 LVVLDDVDKLEQLDALVKQSQWFGSGSRIIVTTENKQLLRAHGITCIYELGFPSRSDSLQ 353

Query:   178 LFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDP 237
             +FC  AF      +  +ELA    K A  LPLA+ VL S L G   D+ +S   RL+   
Sbjct:   354 IFCQYAFGESSAPDGCIELATEITKLAGYLPLALKVLGSSLRGMSKDEQKSALPRLRTSL 413

Query:   238 ENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKS 297
                I  +L++ +DG+ + +K IFL +AC +  EN DYV +IL S G D   G+ VL  +S
Sbjct:   414 NEDIRNVLRVGYDGIHDKDKVIFLHIACLFNGENVDYVKQILASSGLDVTFGLQVLTSRS 473

Query:   298 LLTV-RENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
             L+ + R N  + MH+LL+++G++IV  QS  EPG+R  L + +++  VL+ NT
Sbjct:   474 LIHISRCNRTITMHNLLEQLGREIVCEQSIAEPGKRQFLMDASEIYDVLADNT 526

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)]

 Score = 547 (197.6 bits), Expect = 8.5e-52, P = 8.5e-52
 Identities = 119/346 (34%), Positives = 199/346 (57%)

Query:    10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
             +LVGME+ + K++ L+C  S  VR +GIWG  G+GKTT+AR +Y+     F+ S F+ +V
Sbjct:   183 DLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENV 242

Query:    70 RER-----CDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLIDDV 124
             RE       D  G  +              D  +R++      I  RL+ +KVL+++DDV
Sbjct:   243 RESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRVRHL----GAIEERLKSQKVLIILDDV 298

Query:   125 ADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAF 184
              ++EQL+ L  +  WFG  S I++TT+++ LL  H +  +Y++   +  EA  +FC  AF
Sbjct:   299 DNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAF 358

Query:   185 DTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGI 244
                 P ++   LA  F   A  LPLA+ VL SF+ G+  ++W  +   LK   + ++  +
Sbjct:   359 KQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKV 418

Query:   245 LQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPI-IGISVLIEKSLLTVRE 303
             L++ +DGL + EK++FL +AC +  ++ +Y+ +++ +     +  G+ VL +KSL+   E
Sbjct:   419 LKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFE 478

Query:   304 NDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
             N R+ MH LL+++G+++VR+QS  EPG+R  L    +   VLS NT
Sbjct:   479 NGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNT 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2151491 AT5G46450 [Arabidopsis thaliana (taxid:3702)]

 Score = 539 (194.8 bits), Expect = 6.6e-51, P = 6.6e-51
 Identities = 123/346 (35%), Positives = 195/346 (56%)

Query:     9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
             +E VG++  +EK++ L+   S++VR +GIWG  G+GKTT+AR ++  +S +F  S ++  
Sbjct:   184 EEFVGIKDHIEKVRLLLHLESDEVRMVGIWGTSGIGKTTIARALFSNLSSQFQSSVYIDR 243

Query:    69 VRERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNM-IGS---RLRHKKVLLLIDDV 124
                    EG                 +N +  +    NM IG+   RL+H+KVL++IDD+
Sbjct:   244 AFISKSMEGYG-RANPDDYNMKLRLRENFLFEILGKKNMKIGAMEERLKHQKVLIIIDDL 302

Query:   125 ADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAF 184
              D + L  L G+  WFG GS II+ T+++H L+ H ++ VY+    + + A  +FC  AF
Sbjct:   303 DDQDVLDALVGRTQWFGSGSRIIVVTKNKHFLRAHGIDHVYEACLPSEELALEMFCRYAF 362

Query:   185 DTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGI 244
                 P + ++EL+      A  LPL + VL S+L GR ++ W     RL+ D + KI   
Sbjct:   363 RKNSPPDGFMELSSEVALRAGNLPLGLKVLGSYLRGRDIEDWMDMMPRLQNDLDGKIEKT 422

Query:   245 LQISFDGLK-EAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRE 303
             L++S+DGL  + ++ IF  +AC +  E  + +  +L     D  IG+  L++KSL+ VRE
Sbjct:   423 LRVSYDGLNNKKDEAIFRHIACLFNGEKVNDIKLLLAESDLDVNIGLKNLVDKSLIFVRE 482

Query:   304 NDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
              D + MH LLQ+MG++IVR QS +EPG R  L +   +  VL  NT
Sbjct:   483 -DTIEMHRLLQDMGKEIVRAQS-NEPGEREFLVDSKHIYDVLEDNT 526

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153072 AT5G51630 [Arabidopsis thaliana (taxid:3702)]

 Score = 529 (191.3 bits), Expect = 9.9e-50, P = 9.9e-50
 Identities = 121/345 (35%), Positives = 197/345 (57%)

Query:    10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV 69
             +LVG+E+ L+ +K ++C  S + R +GI G  G+GKTT+AR++Y  +S +FD   F +  
Sbjct:   184 DLVGIEAHLKAVKSILCLESEEARMVGILGPSGIGKTTIARILYSKLSSQFDYHVFGSFK 243

Query:    70 RERCDKEGSVIXXXXXXXXXXXXXADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ 129
             R   D  G  +              D  I  +  GV  +  RL+HKKVL+++DDV ++E 
Sbjct:   244 RTNQDNYGMKLSWEEQFLSEILDQKDLKISQL--GV--VKQRLKHKKVLIVLDDVDNLEL 299

Query:   130 LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP 189
             L+ L G+  WFG GS II+TT+D  LLK H+++ +Y++   +   A R+ C  AFD   P
Sbjct:   300 LKTLVGQTGWFGPGSRIIVTTQDRILLKSHKIDHIYEVGYPSRKLALRILCRSAFDRNSP 359

Query:   190 LEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRD-PENKILGILQIS 248
              + +++LA    +    LPLA++++ S L GR  ++W      L+    + +IL  L++S
Sbjct:   360 PDGFMQLANEVTELVGNLPLALNIMGSSLKGRDKEEWIEMMPSLRNSLVDGEILKTLRVS 419

Query:   249 FDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDR-L 307
             +D L    + IFL +AC       +Y+  +L   G + IIG+ +L EKSL+ +   D+ +
Sbjct:   420 YDRLHGNYQEIFLYIACLLNCCGVEYIISML---GDNAIIGLKILAEKSLIHISPLDKTV 476

Query:   308 WMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVSE 352
              MH LLQ++G++IVR +S   PG+R  L +  D+  V + NT +E
Sbjct:   477 EMHSLLQKLGRKIVRDESFGNPGKRRFLLDAEDICDVFTDNTGTE 521

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.1	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	352
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-65
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-31
pfam05729	165	pfam05729, NACHT, NACHT domain	8e-04

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

 Score =  223 bits (569), Expect = 2e-65
 Identities = 127/352 (36%), Positives = 196/352 (55%), Gaps = 17/352 (4%)

Query: 9   KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD 68
           ++ VG+E  + K+  L+   S +VR +GIWG  G+GKTT+AR ++  +S +F  S F+  
Sbjct: 184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDR 243

Query: 69  V----------RERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVL 118
                          D     + LQ+  LS++L   D  I      +  +  RL+H+KVL
Sbjct: 244 AFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKI----YHLGAMEERLKHRKVL 299

Query: 119 LLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRL 178
           + IDD+ D + L  L G+  WFG GS II+ T+D+H L+ H ++ +Y++   + + A  +
Sbjct: 300 IFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEM 359

Query: 179 FCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPE 238
           FC  AF    P + ++ELA      A  LPL ++VL S+L GR  + W     RL+   +
Sbjct: 360 FCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLD 419

Query: 239 NKILGILQISFDGLK-EAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKS 297
            KI   L++S+DGL  + +K IF  +AC +  E  + +  +L +   D  IG+  L++KS
Sbjct: 420 GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKS 479

Query: 298 LLTVRENDRLWMHDLLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNT 349
           L+ VRE D + MH LLQEMG++IVR QS +EPG R  L +  D+  VL  NT
Sbjct: 480 LIHVRE-DIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

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

 Score =  119 bits (300), Expect = 2e-31
 Identities = 81/285 (28%), Positives = 136/285 (47%), Gaps = 22/285 (7%)

Query: 15  ESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVY--DLMSHEFDGSSFLADVRER 72
           E  +E L   +   S+++  +GI GMGG+GKTTLA+ +Y  D +   FD  +++      
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV------ 55

Query: 73  CDKEGSVIS-LQKQLLSDLLMLADNSIRNVY-DGVNMIGSRLRHKKVLLLIDDVADVEQL 130
              +      LQK +L +L +   + +     +    I   L  K+ LL++DDV +    
Sbjct: 56  VVSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDW 115

Query: 131 RGLFGKRDWFGLGSMIIITTRDEHLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFD-TYK 188
             +         GS +I+TTR E +   +    + +++E+L  +E++ LF  K F+    
Sbjct: 116 DKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELP 175

Query: 189 PLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRP-VDQWRSTQERLKRDPE-----NKIL 242
           P  E  E+AK  V+   GLPLA+ VL   L  +  V +W    E+L  +       N++L
Sbjct: 176 PCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVL 235

Query: 243 GILQISFDGLKEAEKNIFLDVACF---YKWENRDYVSKILDSCGF 284
            IL +S+D L    K  FL +A F   Y    ++ + K+  + GF
Sbjct: 236 SILSLSYDNLPMHLKRCFLYLALFPEDYNIR-KEQLIKLWIAEGF 279

Length = 285

>gnl|CDD|218719 pfam05729, NACHT, NACHT domain

 Score = 39.2 bits (92), Expect = 8e-04
 Identities = 30/166 (18%), Positives = 57/166 (34%), Gaps = 25/166 (15%)

Query: 33  RTIGIWGMGGLGKTTLA-RVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQLLSDL 90
           RT+ + G  G GKTTL  ++       +      F+  +  R        SL   L S  
Sbjct: 1   RTVILQGEAGSGKTTLLQKIALLWAQGKLPQDFDFVFFLPCRELSRSGEASLADLLFSQW 60

Query: 91  LMLADNSIRNVYDGVNMIGSRLRH-KKVLLLIDD----VADVEQLRGLFGKRDWFGL--- 142
              A            +    L   +++LL++D      +D+ QL G             
Sbjct: 61  PEPAAPVSE-------VWAVILELPERLLLILDGLDELASDLGQLDGPCPVLTLLSSLLR 113

Query: 143 -----GSMIIITTRDEHLLKLHRV---EEVYKLEALNFDEAFRLFC 180
                G+ +++T+R + L  L R        ++   + ++  +   
Sbjct: 114 KKLLPGASLLLTSRPDALRDLRRGLEEPRYLEVLGFSEEDRKQYVR 159

This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931. Length = 165

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.89
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.86
COG3899	849	Predicted ATPase [General function prediction only	99.79
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.72
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.67
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.65
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.63
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.59
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.5
PF14516	331	AAA_35: AAA-like domain	99.42
PF05729	166	NACHT: NACHT domain	99.38
PRK12402	337	replication factor C small subunit 2; Reviewed	99.31
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.29
PRK06893	229	DNA replication initiation factor; Validated	99.27
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.26
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.25
PRK13342	413	recombination factor protein RarA; Reviewed	99.23
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.23
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.22
PLN03025	319	replication factor C subunit; Provisional	99.21
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.21
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.17
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.16
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.15
PRK08727	233	hypothetical protein; Validated	99.14
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.14
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.14
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.13
PRK04195	482	replication factor C large subunit; Provisional	99.13
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.12
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.12
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	99.11
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.11
PTZ00202	550	tuzin; Provisional	99.1
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.1
PRK08084	235	DNA replication initiation factor; Provisional	99.09
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.08
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.08
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.07
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.07
PRK05642	234	DNA replication initiation factor; Validated	99.07
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.07
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.07
COG3903	414	Predicted ATPase [General function prediction only	99.07
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.05
PRK09087	226	hypothetical protein; Validated	99.04
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.04
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.04
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.04
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.03
PF13173	128	AAA_14: AAA domain	99.01
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	99.01
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.99
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.99
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.98
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.98
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.97
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.97
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.96
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.95
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.95
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.95
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.95
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.94
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.94
KOG2028	554	consensus ATPase related to the helicase subunit o	98.93
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.93
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.93
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.93
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.93
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.93
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.92
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.92
PRK13341	725	recombination factor protein RarA/unknown domain f	98.92
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.91
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.91
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.9
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.87
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.86
PRK06620	214	hypothetical protein; Validated	98.85
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.85
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.84
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.83
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.83
PRK12422	445	chromosomal replication initiation protein; Provis	98.83
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.83
CHL00095	821	clpC Clp protease ATP binding subunit	98.81
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.8
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.79
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.77
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.75
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.74
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.73
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.73
PHA02544	316	44 clamp loader, small subunit; Provisional	98.69
PRK10865	857	protein disaggregation chaperone; Provisional	98.68
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.66
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.66
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.64
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.61
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.59
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.57
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.55
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.54
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.53
CHL00176	638	ftsH cell division protein; Validated	98.53
PF00004	132	AAA: ATPase family associated with various cellula	98.52
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.51
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.49
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.49
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.48
CHL00181	287	cbbX CbbX; Provisional	98.43
CHL00195	489	ycf46 Ycf46; Provisional	98.42
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.42
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.42
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.4
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.4
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.4
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.39
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.38
PRK08116	268	hypothetical protein; Validated	98.36
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.36
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.35
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.31
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.29
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.28
PRK07952	244	DNA replication protein DnaC; Validated	98.27
PRK08181	269	transposase; Validated	98.27
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.26
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.26
smart00382	148	AAA ATPases associated with a variety of cellular	98.25
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.25
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.23
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.23
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.23
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	98.23
cd01128	249	rho_factor Transcription termination factor rho is	98.22
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.22
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.17
PRK12377	248	putative replication protein; Provisional	98.17
PRK13531	498	regulatory ATPase RavA; Provisional	98.16
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.15
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.15
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.14
PRK06835	329	DNA replication protein DnaC; Validated	98.13
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.12
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.1
PRK09376	416	rho transcription termination factor Rho; Provisio	98.1
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.09
PRK10536	262	hypothetical protein; Provisional	98.09
PRK04132	846	replication factor C small subunit; Provisional	98.07
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.07
PRK06526	254	transposase; Provisional	98.06
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.06
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	98.06
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.05
PRK10865	857	protein disaggregation chaperone; Provisional	98.05
TIGR00767	415	rho transcription termination factor Rho. Members	98.04
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.04
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.04
PRK09183	259	transposase/IS protein; Provisional	98.03
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.03
PRK06921	266	hypothetical protein; Provisional	98.03
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.02
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.01
PRK08939	306	primosomal protein DnaI; Reviewed	98.0
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	98.0
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.99
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.98
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.98
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.97
PRK12608	380	transcription termination factor Rho; Provisional	97.97
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.97
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.97
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.96
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.95
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.94
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.94
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.93
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.92
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.91
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.88
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.87
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.87
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.87
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.84
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.84
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.83
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.82
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.82
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.82
PHA00729	226	NTP-binding motif containing protein	97.81
PRK04296	190	thymidine kinase; Provisional	97.81
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.81
CHL00095	821	clpC Clp protease ATP binding subunit	97.81
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.8
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.77
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.76
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.75
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.74
PRK06067	234	flagellar accessory protein FlaH; Validated	97.73
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.73
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.72
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.71
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.7
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.67
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.67
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.65
PRK06696	223	uridine kinase; Validated	97.65
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.65
PTZ00494	664	tuzin-like protein; Provisional	97.64
CHL00206	2281	ycf2 Ycf2; Provisional	97.64
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.64
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	97.63
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.63
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.62
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.62
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.61
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.61
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.6
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.59
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.56
PRK15455	644	PrkA family serine protein kinase; Provisional	97.56
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.56
PRK09354	349	recA recombinase A; Provisional	97.55
PRK05541	176	adenylylsulfate kinase; Provisional	97.54
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.54
PRK06762	166	hypothetical protein; Provisional	97.53
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.53
PRK07667	193	uridine kinase; Provisional	97.52
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.5
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.5
PRK04328	249	hypothetical protein; Provisional	97.5
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.48
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.48
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.45
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.45
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	97.44
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.42
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.42
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.42
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	97.41
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.39
PRK11823	446	DNA repair protein RadA; Provisional	97.39
PRK07132	299	DNA polymerase III subunit delta'; Validated	97.38
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.37
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.37
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.37
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.37
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	97.35
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	97.35
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.34
PRK08118	167	topology modulation protein; Reviewed	97.33
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.33
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.33
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.32
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.32
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.32
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.31
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.3
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.3
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.3
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.3
PRK14974	336	cell division protein FtsY; Provisional	97.29
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	97.29
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.29
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.29
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.28
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.27
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	97.27
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.26
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.25
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.25
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.25
PRK00889	175	adenylylsulfate kinase; Provisional	97.24
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.24
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.24
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.23
PRK06547	172	hypothetical protein; Provisional	97.23
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.22
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	97.21
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.21
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.2
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.2
PHA02244	383	ATPase-like protein	97.19
TIGR02533	486	type_II_gspE general secretory pathway protein E.	97.18
PRK13765	637	ATP-dependent protease Lon; Provisional	97.18
COG4240	300	Predicted kinase [General function prediction only	97.18
cd03246	173	ABCC_Protease_Secretion This family represents the	97.18
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.18
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.18
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.17
PRK07261	171	topology modulation protein; Provisional	97.17
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.16
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.16
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.16
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.15
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.14
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.14
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.14
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.14
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.13
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.12
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.12
PF13245	76	AAA_19: Part of AAA domain	97.12
PF07726	131	AAA_3: ATPase family associated with various cellu	97.12
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.11
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.1
PRK10436	462	hypothetical protein; Provisional	97.1
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.09
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.09
PRK08233	182	hypothetical protein; Provisional	97.09
PRK07276	290	DNA polymerase III subunit delta'; Validated	97.09
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.08
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.08
PRK15115	444	response regulator GlrR; Provisional	97.08
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.07
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.06
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	97.06
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.06
COG3910	233	Predicted ATPase [General function prediction only	97.06
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.06
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.06
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.05
PTZ00301	210	uridine kinase; Provisional	97.04
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.04
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.03
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.03
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.03
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.03
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.02
PRK05480	209	uridine/cytidine kinase; Provisional	97.02
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.02
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.01
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.01
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.01
PRK10867	433	signal recognition particle protein; Provisional	97.01
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.01
COG0714	329	MoxR-like ATPases [General function prediction onl	97.0
PRK14738	206	gmk guanylate kinase; Provisional	96.98
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.98
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.98
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.97
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.97
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.96
PRK04040	188	adenylate kinase; Provisional	96.96
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.96
PTZ00035	337	Rad51 protein; Provisional	96.96
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.94
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.94
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.94
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.94
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.93
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.93
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.93
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.93
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.92
PRK00131	175	aroK shikimate kinase; Reviewed	96.92
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.92
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	96.92
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.92
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	96.92
PRK03839	180	putative kinase; Provisional	96.91
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.9
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.9
PRK05973	237	replicative DNA helicase; Provisional	96.89
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.89
PRK03846	198	adenylylsulfate kinase; Provisional	96.89
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.89
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.88
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.88
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.88
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.87
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.86
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.86
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.86
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	96.85
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.85
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.84
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.83
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.83
PRK12678	672	transcription termination factor Rho; Provisional	96.83
PRK05818	261	DNA polymerase III subunit delta'; Validated	96.82
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.82
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	96.81
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.81
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.81
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.8
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.8
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.8
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.8
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.8
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.8
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.79
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.79
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.78
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	96.78
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.78
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.78
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.77
KOG0922	674	consensus DEAH-box RNA helicase [RNA processing an	96.77
PRK00279	215	adk adenylate kinase; Reviewed	96.77
TIGR00959	428	ffh signal recognition particle protein. This mode	96.77
PRK14737	186	gmk guanylate kinase; Provisional	96.76
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.75
PTZ00088	229	adenylate kinase 1; Provisional	96.75
PRK13764	602	ATPase; Provisional	96.75
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	96.75
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.74
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.73
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.73
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.72
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.72
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.72
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.72
PRK05439	311	pantothenate kinase; Provisional	96.71
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.71
COG1485	367	Predicted ATPase [General function prediction only	96.71
PRK00625	173	shikimate kinase; Provisional	96.7
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.7
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.69
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.69
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.69
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.68
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.68
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.67
PRK06217	183	hypothetical protein; Validated	96.67
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.67
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.66
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.66
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.66
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	96.66
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.66
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.66
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.65
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.65
PRK15453	290	phosphoribulokinase; Provisional	96.65
PRK14527	191	adenylate kinase; Provisional	96.65
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.65
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	96.63
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.63
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.63
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	96.62
PRK10416	318	signal recognition particle-docking protein FtsY;	96.62
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.62
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	96.61
PRK10646	153	ADP-binding protein; Provisional	96.61
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.6
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.59
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	96.59
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.58
PRK14529	223	adenylate kinase; Provisional	96.58
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.58
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.57
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.57
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.57
PRK00300	205	gmk guanylate kinase; Provisional	96.56
PRK13947	171	shikimate kinase; Provisional	96.56
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.55
COG1672	359	Predicted ATPase (AAA+ superfamily) [General funct	96.54
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.53
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.53
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.53
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.53
PRK09302	509	circadian clock protein KaiC; Reviewed	96.52
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	96.52
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.52
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.51
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.51
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.51
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.5
PRK14530	215	adenylate kinase; Provisional	96.5
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.5
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.5
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.5
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.5
PRK13949	169	shikimate kinase; Provisional	96.49
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.49
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.49
PRK06761	282	hypothetical protein; Provisional	96.49
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.49
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.47
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	96.46
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.46
PLN02200	234	adenylate kinase family protein	96.45
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.44
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.44
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.43
PRK13889	988	conjugal transfer relaxase TraA; Provisional	96.43
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.43
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.42
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.41
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.41
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.4
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.37
PHA02530	300	pseT polynucleotide kinase; Provisional	96.37

>PLN03210 Resistant to P

Probab=100.00  E-value=3.4e-41  Score=341.01  Aligned_cols=343  Identities=36%  Similarity=0.651  Sum_probs=285.6

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec--ccc---cc---
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV--RER---CD---   74 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~--~~~---~~---   74 (352)
                      +++...+++|||+..++++..++.-..++.++|.|+|++|+||||||+.++..+..+|...+|+...  ...   ..   
T Consensus       178 ~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~  257 (1153)
T PLN03210        178 TPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSAN  257 (1153)
T ss_pred             ccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhccccc
Confidence            4556678899999999999999886667789999999999999999999999999999888877431  100   00   


Q ss_pred             --CCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677           75 --KEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        75 --~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                        .......+...++..+..........    ...+++.+.++++||||||+|+...++.+.......+.|++||||||+
T Consensus       258 ~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd  333 (1153)
T PLN03210        258 PDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKD  333 (1153)
T ss_pred             ccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCc
Confidence              00111233344444443322221111    245677788999999999999999998888766666789999999999


Q ss_pred             hhHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHHHH
Q 045677          153 EHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQER  232 (352)
Q Consensus       153 ~~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~~~  232 (352)
                      ..+.........++++.++.++++++|.+.++....+++...+...+++++|+|+||||+.+|+.++.++..+|...+++
T Consensus       334 ~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~  413 (1153)
T PLN03210        334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPR  413 (1153)
T ss_pred             HHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            98877665667999999999999999999998877666677889999999999999999999999999999999999999


Q ss_pred             HccCCchhHHHHHHhhhccCcH-hhhhhhhhhccCCCCCCHHHHHHHHHhcCCCchhchHHHhhccceeecCCCceehhH
Q 045677          233 LKRDPENKILGILQISFDGLKE-AEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHD  311 (352)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~L~~-~~~~~l~~ls~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~li~~~~~~~~~~H~  311 (352)
                      +....+..+..++..+|+.|++ .+|.+|.++++|+.+...+.+..++...+......++.|++++||+.. .+++.||+
T Consensus       414 L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHd  492 (1153)
T PLN03210        414 LRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHS  492 (1153)
T ss_pred             HHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhh
Confidence            9887788999999999999976 589999999999999999988888888888888889999999999886 56799999


Q ss_pred             HHHHHHHHHHhhcCCCCCCCcccccccchhhHhhccCCCC
Q 045677          312 LLQEMGQQIVRRQSPDEPGRRSRLWEEADVSHVLSQNTVS  351 (352)
Q Consensus       312 lir~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  351 (352)
                      ++|++++++++++. ..++.+.++|.+.++.+++.+..|+
T Consensus       493 Ll~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~g~  531 (1153)
T PLN03210        493 LLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNTGT  531 (1153)
T ss_pred             HHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCccc
Confidence            99999999998875 6789999999999999999887765

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=4.3e-39  Score=311.06  Aligned_cols=306  Identities=30%  Similarity=0.388  Sum_probs=261.1

Q ss_pred             ccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH---hcCCCcceeEeeeccccccCCCcHHHHHHHHHH
Q 045677           12 VGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL---MSHEFDGSSFLADVRERCDKEGSVISLQKQLLS   88 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (352)
                      ||.+..++++.+.|...  +..++.|+|+||+||||||+++.++   ++.+|+..+|++    ++..... ..+..+++.
T Consensus       161 VG~e~~~~kl~~~L~~d--~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~f~~-~~iq~~Il~  233 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMED--DVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFTT-RKIQQTILE  233 (889)
T ss_pred             ccHHHHHHHHHHHhccC--CCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----EcccccH-HhHHHHHHH
Confidence            99999999999999954  3389999999999999999999986   568899999998    4444444 788888888


Q ss_pred             HHhcccCCC-ccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhHhhh-cCcccEEe
Q 045677           89 DLLMLADNS-IRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKL-HRVEEVYK  166 (352)
Q Consensus        89 ~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~-~~~~~~~~  166 (352)
                      .+....... ..........+.+.+.+++++||+||+|+..+|+.+...++....|++|++|||+..++.. +.....++
T Consensus       234 ~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~  313 (889)
T KOG4658|consen  234 RLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIE  313 (889)
T ss_pred             HhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCcccc
Confidence            776633332 3334788888999999999999999999999999999988877788999999999999888 66778999


Q ss_pred             cCCCCHhHHHHHHHhhhcCCCC-CchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCC-hhHHHHHHHHHccC-------C
Q 045677          167 LEALNFDEAFRLFCLKAFDTYK-PLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRP-VDQWRSTQERLKRD-------P  237 (352)
Q Consensus       167 l~~l~~~e~~~ll~~~~~~~~~-~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~-~~~~~~~~~~~~~~-------~  237 (352)
                      +..|+.+|||.+|.+.++.... ..+..++.+++++++|+|+|+|+..+|..++.+. ..+|..+.+.+.+.       .
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~  393 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGM  393 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCch
Confidence            9999999999999999876532 2244789999999999999999999999998864 55899999987654       2


Q ss_pred             chhHHHHHHhhhccCcHhhhhhhhhhccCCCC--CCHHHHHHHHHhcCCC------------chhchHHHhhccceeecC
Q 045677          238 ENKILGILQISFDGLKEAEKNIFLDVACFYKW--ENRDYVSKILDSCGFD------------PIIGISVLIEKSLLTVRE  303 (352)
Q Consensus       238 ~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~~--~~~~~l~~~~~~~~~~------------~~~~l~~L~~~~li~~~~  303 (352)
                      ...+..++..+|+.|+++.+.||+|||+||++  +..+.+..+|.++|+.            ...++.+|++++|+....
T Consensus       394 ~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~  473 (889)
T KOG4658|consen  394 EESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEER  473 (889)
T ss_pred             hhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcc
Confidence            46788999999999999999999999999987  5899999999999843            355699999999999875


Q ss_pred             C----CceehhHHHHHHHHHHHhhc
Q 045677          304 N----DRLWMHDLLQEMGQQIVRRQ  324 (352)
Q Consensus       304 ~----~~~~~H~lir~~~~~~~~~~  324 (352)
                      +    ..+.|||++|++|...+++.
T Consensus       474 ~~~~~~~~kmHDvvRe~al~ias~~  498 (889)
T KOG4658|consen  474 DEGRKETVKMHDVVREMALWIASDF  498 (889)
T ss_pred             cccceeEEEeeHHHHHHHHHHhccc
Confidence            3    45899999999999999933

>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=4.1e-37  Score=268.77  Aligned_cols=268  Identities=31%  Similarity=0.450  Sum_probs=206.9

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH--hcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHh
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL--MSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLL   91 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (352)
                      |+.++++|.++|....++.++|+|+|++|+|||+||.+++++  .+.+|+..+|+..    ...... ..+...++..+.
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~----~~~~~~-~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSL----SKNPSL-EQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEE----ES-SCC-HHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccc----cccccc-cccccccccccc
Confidence            789999999999975578899999999999999999999988  8888987777762    333333 677788888876


Q ss_pred             cccCC--CccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhHhhhcCc-ccEEecC
Q 045677           92 MLADN--SIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRV-EEVYKLE  168 (352)
Q Consensus        92 ~~~~~--~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~~~~-~~~~~l~  168 (352)
                      .....  ...+.......+.+.+.++++||||||+|+...|+.+...+.....+++||+|||+..+...... ...++++
T Consensus        76 ~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~  155 (287)
T PF00931_consen   76 EPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELE  155 (287)
T ss_dssp             CC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECS
T ss_pred             ccccccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence            65432  45677778899999999999999999999999988887666555678999999999877665443 6789999


Q ss_pred             CCCHhHHHHHHHhhhcCCC-CCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCC-ChhHHHHHHHHHccC------Cchh
Q 045677          169 ALNFDEAFRLFCLKAFDTY-KPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGR-PVDQWRSTQERLKRD------PENK  240 (352)
Q Consensus       169 ~l~~~e~~~ll~~~~~~~~-~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~-~~~~~~~~~~~~~~~------~~~~  240 (352)
                      +|+.+|+.++|.+.++... ...+..++.+++|++.|+|+|++|+.+|++++.+ ...+|....+.+...      ....
T Consensus       156 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~  235 (287)
T PF00931_consen  156 PLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRS  235 (287)
T ss_dssp             S--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999875544 1223345678999999999999999999999543 567888888776543      2478


Q ss_pred             HHHHHHhhhccCcHhhhhhhhhhccCCCC--CCHHHHHHHHHhcCCCc
Q 045677          241 ILGILQISFDGLKEAEKNIFLDVACFYKW--ENRDYVSKILDSCGFDP  286 (352)
Q Consensus       241 ~~~~l~~~~~~L~~~~~~~l~~ls~~~~~--~~~~~l~~~~~~~~~~~  286 (352)
                      +...+..+|+.|+++.|.||.+|++||.+  ++.+.+..+|.++++..
T Consensus       236 ~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~  283 (287)
T PF00931_consen  236 VFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFIS  283 (287)
T ss_dssp             HHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC
T ss_pred             ccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCc
Confidence            99999999999999999999999999987  56999999998876544

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.89  E-value=4.5e-21  Score=193.02  Aligned_cols=302  Identities=14%  Similarity=0.139  Sum_probs=196.2

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      .||..+..+|-|+.-++.|.+     ....++++|+||+|.||||++.++....    ....|+. +...   ...+..+
T Consensus         8 ~~p~~~~~~~~R~rl~~~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~~-l~~~---d~~~~~f   74 (903)
T PRK04841          8 SRPVRLHNTVVRERLLAKLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWYS-LDES---DNQPERF   74 (903)
T ss_pred             CCCCCccccCcchHHHHHHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEEe-cCcc---cCCHHHH
Confidence            478888899999987777754     2356899999999999999999988643    2467774 3222   2222344


Q ss_pred             HHHHHHHHhcccCC------------CccchhhhHHHHHhhhC--CceEEEEEeCCCCh--hhhhhhhCC-CCCCCCCce
Q 045677           83 QKQLLSDLLMLADN------------SIRNVYDGVNMIGSRLR--HKKVLLLIDDVADV--EQLRGLFGK-RDWFGLGSM  145 (352)
Q Consensus        83 ~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~--~~~~~l~~~-~~~~~~~~~  145 (352)
                      ...++..+......            ...........+...+.  +.+++|||||++..  ..+..++.. +...+.+.+
T Consensus        75 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~  154 (903)
T PRK04841         75 ASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLT  154 (903)
T ss_pred             HHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeE
Confidence            44555444211111            00122223333333332  68999999999643  222222222 222356788


Q ss_pred             EEEEeCchhHhhhcC---cccEEecC----CCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          146 IIITTRDEHLLKLHR---VEEVYKLE----ALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       146 iiitsr~~~~~~~~~---~~~~~~l~----~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      +|||||.........   .....+|.    +|+.+|+.+++...... ..    ..+.+..+++.|+|+|+++.+++..+
T Consensus       155 lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~-~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~  229 (903)
T PRK04841        155 LVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS-PI----EAAESSRLCDDVEGWATALQLIALSA  229 (903)
T ss_pred             EEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC-CC----CHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            999999753221111   12244555    99999999999776522 11    23668899999999999999988776


Q ss_pred             cCCChhHHHHHHHHHccCCchhHHHHHH-hhhccCcHhhhhhhhhhccCCCCCCHHHHHHHHHhcCCCchhchHHHhhcc
Q 045677          219 FGRPVDQWRSTQERLKRDPENKILGILQ-ISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKS  297 (352)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~L~~~~~~~l~~ls~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~  297 (352)
                      .... .........+.......+...+. ..+..||+..+.++..+|+++ .++.+.+..+++  ..+....+..|.+.|
T Consensus       230 ~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~--~~~~~~~L~~l~~~~  305 (903)
T PRK04841        230 RQNN-SSLHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTG--EENGQMRLEELERQG  305 (903)
T ss_pred             hhCC-CchhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcC--CCcHHHHHHHHHHCC
Confidence            5432 11111122222222345666654 448999999999999999986 788887777774  335578899999999


Q ss_pred             ceeec-C--CCceehhHHHHHHHHHHHhhcCC
Q 045677          298 LLTVR-E--NDRLWMHDLLQEMGQQIVRRQSP  326 (352)
Q Consensus       298 li~~~-~--~~~~~~H~lir~~~~~~~~~~~~  326 (352)
                      ++... +  ..+|++||++|+|++..+....+
T Consensus       306 l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~~~  337 (903)
T PRK04841        306 LFIQRMDDSGEWFRYHPLFASFLRHRCQWELA  337 (903)
T ss_pred             CeeEeecCCCCEEehhHHHHHHHHHHHHhcCc
Confidence            97643 2  23799999999999999866543

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.86  E-value=1.3e-19  Score=168.56  Aligned_cols=300  Identities=17%  Similarity=0.191  Sum_probs=204.6

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      ||..+.++|-|..-++.|..     ..++|.++|..|+|.|||||+.+++. .......+.|+.    .....+....++
T Consensus        14 ~P~~~~~~v~R~rL~~~L~~-----~~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wls----lde~dndp~rF~   83 (894)
T COG2909          14 RPVRPDNYVVRPRLLDRLRR-----ANDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLS----LDESDNDPARFL   83 (894)
T ss_pred             CCCCcccccccHHHHHHHhc-----CCCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEee----cCCccCCHHHHH
Confidence            56667888888877777765     45679999999999999999999998 455556788887    333333346677


Q ss_pred             HHHHHHHhcccCCC------------ccchhhhHHHHHhhhC--CceEEEEEeCCCCh------hhhhhhhCCCCCCCCC
Q 045677           84 KQLLSDLLMLADNS------------IRNVYDGVNMIGSRLR--HKKVLLLIDDVADV------EQLRGLFGKRDWFGLG  143 (352)
Q Consensus        84 ~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~------~~~~~l~~~~~~~~~~  143 (352)
                      ..++..+..-.+..            ..+.....+.+...+.  .+++.+||||++-+      ..++.++..   .+.+
T Consensus        84 ~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~---~P~~  160 (894)
T COG2909          84 SYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKH---APEN  160 (894)
T ss_pred             HHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHh---CCCC
Confidence            77776655322222            1234444555555443  57999999999522      224444433   4678


Q ss_pred             ceEEEEeCchhHhhhcCc---ccEEe----cCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          144 SMIIITTRDEHLLKLHRV---EEVYK----LEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       144 ~~iiitsr~~~~~~~~~~---~~~~~----l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ..+|+|||..+.....+.   ...++    .=.|+.+|+.++|..... ..    ..+..++.+++.++|++-++.+++-
T Consensus       161 l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~-l~----Ld~~~~~~L~~~teGW~~al~L~aL  235 (894)
T COG2909         161 LTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS-LP----LDAADLKALYDRTEGWAAALQLIAL  235 (894)
T ss_pred             eEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC-CC----CChHHHHHHHhhcccHHHHHHHHHH
Confidence            899999997654333211   11122    235899999999987652 11    2346688999999999999999988


Q ss_pred             hhcCCChhHHHHHHHHHccCCchhHHH-HHHhhhccCcHhhhhhhhhhccCCCCCCHHHHHHHHHhcCCCchhchHHHhh
Q 045677          217 FLFGRPVDQWRSTQERLKRDPENKILG-ILQISFDGLKEAEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIE  295 (352)
Q Consensus       217 ~l~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~L~~~~~~~l~~ls~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~  295 (352)
                      .++.+...  ......+... ...+.+ +.+..++.||++.+.++..+|+++ .|.-+...++++  ..+...-+++|.+
T Consensus       236 a~~~~~~~--~q~~~~LsG~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~-~f~~eL~~~Ltg--~~ng~amLe~L~~  309 (894)
T COG2909         236 ALRNNTSA--EQSLRGLSGA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLS-RFNDELCNALTG--EENGQAMLEELER  309 (894)
T ss_pred             HccCCCcH--HHHhhhccch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH-HhhHHHHHHHhc--CCcHHHHHHHHHh
Confidence            88843221  1122222222 234444 567889999999999999999983 355566656652  3345667999999


Q ss_pred             ccceeec---CCCceehhHHHHHHHHHHHhhcCCC
Q 045677          296 KSLLTVR---ENDRLWMHDLLQEMGQQIVRRQSPD  327 (352)
Q Consensus       296 ~~li~~~---~~~~~~~H~lir~~~~~~~~~~~~~  327 (352)
                      +||+-..   ++++|++|++|.+|.+.++....+.
T Consensus       310 ~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~  344 (894)
T COG2909         310 RGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRELAA  344 (894)
T ss_pred             CCCceeeecCCCceeehhHHHHHHHHhhhccccCC
Confidence            9999733   3667999999999999999986544

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.79  E-value=6.7e-18  Score=164.90  Aligned_cols=328  Identities=16%  Similarity=0.195  Sum_probs=200.1

Q ss_pred             CcccccHHHHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe-eeccccccCCCcHHHHHHHHH
Q 045677           10 ELVGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL-ADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      .++||+.|++.|...+.. ..+...++.|.|.+|||||++++++...+.+.....+.. ++--....+...+.+.++++.
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            479999999999998886 445678999999999999999999999876652211111 110111112222333444444


Q ss_pred             HHHhcccCCCc-------------------cch---------------------h-----hhHHHHHhhhC-CceEEEEE
Q 045677           88 SDLLMLADNSI-------------------RNV---------------------Y-----DGVNMIGSRLR-HKKVLLLI  121 (352)
Q Consensus        88 ~~~~~~~~~~~-------------------~~~---------------------~-----~~~~~~~~~l~-~~~~llvl  121 (352)
                      .++........                   +.+                     +     .....+..... .+|+++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            33311111100                   000                     0     11122222233 45999999


Q ss_pred             eCC-CCh-hhh---hhhhCCCC--CC-CCCceEEEEeCch--hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCch
Q 045677          122 DDV-ADV-EQL---RGLFGKRD--WF-GLGSMIIITTRDE--HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLE  191 (352)
Q Consensus       122 Dd~-~~~-~~~---~~l~~~~~--~~-~~~~~iiitsr~~--~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~  191 (352)
                      ||+ |.. .++   +.++....  .. ......+.+.+..  .+.........+.|.||+..+...++..........  
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~--  238 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL--  238 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc--
Confidence            999 533 333   33333221  00 0122222233322  122223445789999999999999999887542222  


Q ss_pred             hHHHHHHHHHHHcCCCchhHHHHHHhhcCC-------ChhHHHHHHHHHccC-CchhHHHHHHhhhccCcHhhhhhhhhh
Q 045677          192 EYLELAKCFVKYASGLPLAVDVLVSFLFGR-------PVDQWRSTQERLKRD-PENKILGILQISFDGLKEAEKNIFLDV  263 (352)
Q Consensus       192 ~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~-------~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~L~~~~~~~l~~l  263 (352)
                       ..+..+.+++++.|||+++..+.+.+.++       ....|......+... ..+++...+...++.||...++++...
T Consensus       239 -~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~A  317 (849)
T COG3899         239 -PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKAA  317 (849)
T ss_pred             -cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence             23678899999999999999999998774       234455444443321 123455678999999999999999999


Q ss_pred             ccCCCCCCHHHHHHHHHhcCCC-chhchHHHhhccceeec-----C---CCc-e-ehhHHHHHHHHHHHhhcCCCCCCCc
Q 045677          264 ACFYKWENRDYVSKILDSCGFD-PIIGISVLIEKSLLTVR-----E---NDR-L-WMHDLLQEMGQQIVRRQSPDEPGRR  332 (352)
Q Consensus       264 s~~~~~~~~~~l~~~~~~~~~~-~~~~l~~L~~~~li~~~-----~---~~~-~-~~H~lir~~~~~~~~~~~~~~~~~~  332 (352)
                      +|+.+.|+.+.+..++...... ....+..|....++...     .   .-. | ..|+++++++++.+.+.      .|
T Consensus       318 A~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~------~r  391 (849)
T COG3899         318 ACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPES------QR  391 (849)
T ss_pred             HHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchh------hH
Confidence            9999999999999998643222 33344555555555321     1   111 2 46999999998877764      22


Q ss_pred             ccccccchhhHhhccC
Q 045677          333 SRLWEEADVSHVLSQN  348 (352)
Q Consensus       333 ~~~~~~~~~~~~l~~~  348 (352)
                      .  ..|-.+...|.+.
T Consensus       392 q--~~H~~i~~lL~~~  405 (849)
T COG3899         392 Q--YLHLRIGQLLEQN  405 (849)
T ss_pred             H--HHHHHHHHHHHHh
Confidence            2  4477777777543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.72  E-value=2.3e-15  Score=137.45  Aligned_cols=288  Identities=16%  Similarity=0.144  Sum_probs=168.2

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC--CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG--SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~--~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   80 (352)
                      |...|+.|+||+.|+++|...+...  +...+.++|+|++|+|||++++.+++.+.... ...+.+.++....    ...
T Consensus        25 ~~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~----~~~  100 (394)
T PRK00411         25 PDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDR----TRY  100 (394)
T ss_pred             CCCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCC----CHH
Confidence            4557889999999999999998642  33456689999999999999999999876543 2222222222222    225


Q ss_pred             HHHHHHHHHHhcccC-CCccchhhhHHHHHhhhC--CceEEEEEeCCCChh------hhhhhhCCCCCC-CCCceEEEEe
Q 045677           81 SLQKQLLSDLLMLAD-NSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADVE------QLRGLFGKRDWF-GLGSMIIITT  150 (352)
Q Consensus        81 ~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~~------~~~~l~~~~~~~-~~~~~iiits  150 (352)
                      .++..++..+..... ....+.......+.+.+.  +++++||||+++...      .+..+....... ..+..+|.++
T Consensus       101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~  180 (394)
T PRK00411        101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGIS  180 (394)
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEE
Confidence            666677776654221 122234555666666654  467999999996542      344444332211 1234456665


Q ss_pred             CchhHhhhc-------CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHc----CCCchhHHHHHHhh-
Q 045677          151 RDEHLLKLH-------RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYA----SGLPLAVDVLVSFL-  218 (352)
Q Consensus       151 r~~~~~~~~-------~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~----~G~Pl~i~~~~~~l-  218 (352)
                      .+.......       -....+.+++++.++..+++..++..........++.++.+++.+    |..+.++..+-..+ 
T Consensus       181 ~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~  260 (394)
T PRK00411        181 SDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGL  260 (394)
T ss_pred             CCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            543322211       112467899999999999998876322111112335555565555    33555555543321 


Q ss_pred             --c-CC----ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCC----CCCCHHHHHH----HHHhcC
Q 045677          219 --F-GR----PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFY----KWENRDYVSK----ILDSCG  283 (352)
Q Consensus       219 --~-~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~----~~~~~~~l~~----~~~~~~  283 (352)
                        . ..    ....+....+..       ....+...+..||..++.++..++...    ..++...+..    ++...+
T Consensus       261 ~a~~~~~~~I~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~  333 (394)
T PRK00411        261 IAEREGSRKVTEEDVRKAYEKS-------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG  333 (394)
T ss_pred             HHHHcCCCCcCHHHHHHHHHHH-------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC
Confidence              1 11    123333333332       123456678999999999988876442    3344444432    221122


Q ss_pred             C------CchhchHHHhhccceeec
Q 045677          284 F------DPIIGISVLIEKSLLTVR  302 (352)
Q Consensus       284 ~------~~~~~l~~L~~~~li~~~  302 (352)
                      .      ....+++.|...|||...
T Consensus       334 ~~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        334 YEPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             CCcCcHHHHHHHHHHHHhcCCeEEE
Confidence            2      234578999999999854

>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=99.67  E-value=1.8e-16  Score=134.10  Aligned_cols=198  Identities=21%  Similarity=0.225  Sum_probs=103.0

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH------HH
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL------QK   84 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l------~~   84 (352)
                      |+||+.|+++|.+++.+  +..+.++|+|+.|+|||+|+..+...........+|+.........  .....      ..
T Consensus         1 F~gR~~el~~l~~~l~~--~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~--~~~~~~~~~~~~~   76 (234)
T PF01637_consen    1 FFGREKELEKLKELLES--GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNES--SLRSFIEETSLAD   76 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHH--HHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHh--hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhh--HHHHHHHHHHHHH
Confidence            89999999999999984  3457899999999999999999999885543334444322111110  00111      11


Q ss_pred             HHHHHHhcccC---------CCccchhhhHHHHHhhhC--CceEEEEEeCCCChh-------h----hhhhhCCCCCCCC
Q 045677           85 QLLSDLLMLAD---------NSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADVE-------Q----LRGLFGKRDWFGL  142 (352)
Q Consensus        85 ~~~~~~~~~~~---------~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~~-------~----~~~l~~~~~~~~~  142 (352)
                      .+...+.....         ............+.+.+.  +.+++|||||++...       .    +..+..... ...
T Consensus        77 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~  155 (234)
T PF01637_consen   77 ELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL-SQQ  155 (234)
T ss_dssp             HCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----T
T ss_pred             HHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc-ccC
Confidence            11111111111         011222233333333332  345999999995444       1    222222211 134


Q ss_pred             CceEEEEeCchhHhhh--------cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          143 GSMIIITTRDEHLLKL--------HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       143 ~~~iiitsr~~~~~~~--------~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      +..+|+++....+...        ......+.|++|+.+++.+++.......... +...+..+.++..+||+|..|..+
T Consensus       156 ~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~~~  234 (234)
T PF01637_consen  156 NVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQEL  234 (234)
T ss_dssp             TEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHHH
T ss_pred             CceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHhcC
Confidence            4555565554433322        2233459999999999999998865333111 235677899999999999998753

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.65  E-value=2.7e-13  Score=122.52  Aligned_cols=290  Identities=14%  Similarity=0.102  Sum_probs=163.3

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc-----ceeEeeeccccccC
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD-----GSSFLADVRERCDK   75 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~-----~~~~~~~~~~~~~~   75 (352)
                      ++...|+.|+||+.|+++|..++..  .+...+.++|+|++|+|||++++.+++.+.....     ..+.+.++....  
T Consensus         9 ~~~~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~--   86 (365)
T TIGR02928         9 EPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILD--   86 (365)
T ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCC--
Confidence            3556788999999999999999875  2234567899999999999999999987643221     222233322221  


Q ss_pred             CCcHHHHHHHHHHHHhc--cc-CCCccchhhhHHHHHhhh--CCceEEEEEeCCCChh-----hhhhhhCCC--CCC-CC
Q 045677           76 EGSVISLQKQLLSDLLM--LA-DNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADVE-----QLRGLFGKR--DWF-GL  142 (352)
Q Consensus        76 ~~~~~~l~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~~-----~~~~l~~~~--~~~-~~  142 (352)
                        ....++..++..+..  .. +....+..+....+.+.+  .+++++||||+++...     .+..+....  ... ..
T Consensus        87 --~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~  164 (365)
T TIGR02928        87 --TLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNA  164 (365)
T ss_pred             --CHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCC
Confidence              225666677766632  11 111122334444455544  3568899999997551     133333321  111 13


Q ss_pred             CceEEEEeCchhHhhhc------Cc-ccEEecCCCCHhHHHHHHHhhhcCC---CCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          143 GSMIIITTRDEHLLKLH------RV-EEVYKLEALNFDEAFRLFCLKAFDT---YKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       143 ~~~iiitsr~~~~~~~~------~~-~~~~~l~~l~~~e~~~ll~~~~~~~---~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      +..+|.++.........      +. ...+.+++++.++..+++..+....   ....+..-+.+..++..+.|.|..+.
T Consensus       165 ~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al  244 (365)
T TIGR02928       165 KVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAI  244 (365)
T ss_pred             eEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHH
Confidence            34455555433221111      11 2468899999999999998876311   11222222345566777789986654


Q ss_pred             HHHHhhc-----C-C---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCC----CCCCHHHHHH--
Q 045677          213 VLVSFLF-----G-R---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFY----KWENRDYVSK--  277 (352)
Q Consensus       213 ~~~~~l~-----~-~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~----~~~~~~~l~~--  277 (352)
                      .++....     + .   ..+.+....+..       -...+...+..||.+++.++..+..+-    ..+....+..  
T Consensus       245 ~~l~~a~~~a~~~~~~~it~~~v~~a~~~~-------~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y  317 (365)
T TIGR02928       245 DLLRVAGEIAEREGAERVTEDHVEKAQEKI-------EKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVY  317 (365)
T ss_pred             HHHHHHHHHHHHcCCCCCCHHHHHHHHHHH-------HHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence            4333221     1 1   122223222222       123455678899999988887765321    2244333332  


Q ss_pred             --HHHhcCC------CchhchHHHhhccceeecC
Q 045677          278 --ILDSCGF------DPIIGISVLIEKSLLTVRE  303 (352)
Q Consensus       278 --~~~~~~~------~~~~~l~~L~~~~li~~~~  303 (352)
                        +....+.      .....+..|...|||+...
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       318 KEVCEDIGVDPLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             HHHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEEE
Confidence              2211121      1245688999999998753

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=99.63  E-value=2.3e-14  Score=126.15  Aligned_cols=256  Identities=19%  Similarity=0.180  Sum_probs=154.0

Q ss_pred             cCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..|||++..++.|..++..   ..+..+.++|+||+|+|||+||..+++.+...+    ...........    ..+ ..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~----~~~~~~~~~~~----~~l-~~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL----KITSGPALEKP----GDL-AA   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCE----EEeccchhcCc----hhH-HH
Confidence            4699999999999998874   123345688999999999999999998876432    11111000000    111 11


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh--hhhhhhCCCC-------------------CCCCCc
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE--QLRGLFGKRD-------------------WFGLGS  144 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~--~~~~l~~~~~-------------------~~~~~~  144 (352)
                      .+..+                       +...+++||+++...  ..+.++..+.                   ...+.+
T Consensus        75 ~l~~~-----------------------~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  131 (305)
T TIGR00635        75 ILTNL-----------------------EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFT  131 (305)
T ss_pred             HHHhc-----------------------ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeE
Confidence            11111                       123466667664221  1111111110                   001233


Q ss_pred             eEEEEeCchhHhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC--
Q 045677          145 MIIITTRDEHLLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG--  220 (352)
Q Consensus       145 ~iiitsr~~~~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~--  220 (352)
                      .|..|++...+...  .+....+.+.+++.++..+++.+.+.....  ...++.++.|++.|+|.|..+..++..+..  
T Consensus       132 li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~--~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a  209 (305)
T TIGR00635       132 LVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNV--EIEPEAALEIARRSRGTPRIANRLLRRVRDFA  209 (305)
T ss_pred             EEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            34445665433222  123456899999999999999887643222  234577889999999999887766654321  


Q ss_pred             ----CChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhh-ccCCC-CCCHHHHHHHHHhcCCCchhchH-HH
Q 045677          221 ----RPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDV-ACFYK-WENRDYVSKILDSCGFDPIIGIS-VL  293 (352)
Q Consensus       221 ----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~l-s~~~~-~~~~~~l~~~~~~~~~~~~~~l~-~L  293 (352)
                          ...-.....         ......+...+..++..++..|..+ ..+.+ +++.+.++..++.+....+..++ .|
T Consensus       210 ~~~~~~~it~~~v---------~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~L  280 (305)
T TIGR00635       210 QVRGQKIINRDIA---------LKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYL  280 (305)
T ss_pred             HHcCCCCcCHHHH---------HHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHH
Confidence                000000000         1111124556788888888877744 54543 47899999999988888888899 69


Q ss_pred             hhccceeecCCCce
Q 045677          294 IEKSLLTVRENDRL  307 (352)
Q Consensus       294 ~~~~li~~~~~~~~  307 (352)
                      +++|||...+.|++
T Consensus       281 i~~~li~~~~~g~~  294 (305)
T TIGR00635       281 LQIGFLQRTPRGRI  294 (305)
T ss_pred             HHcCCcccCCchhh
Confidence            99999987766643

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.59  E-value=5.5e-14  Score=124.60  Aligned_cols=263  Identities=19%  Similarity=0.174  Sum_probs=159.2

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-..|+||+..++.+..++..   .....+.++|+|++|+|||+||..+++.+...+.    ....... .   . ..
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~----~~~~~~~-~---~-~~   91 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR----ITSGPAL-E---K-PG   91 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE----EEecccc-c---C-hH
Confidence            34456799999999999887764   2334567899999999999999999998764321    1111000 0   0 11


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh--hhhhhhCCCC-------------------CC
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE--QLRGLFGKRD-------------------WF  140 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~--~~~~l~~~~~-------------------~~  140 (352)
                      .+..++..+                       +...+|+||+++...  ..+.+...+.                   ..
T Consensus        92 ~l~~~l~~l-----------------------~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l  148 (328)
T PRK00080         92 DLAAILTNL-----------------------EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDL  148 (328)
T ss_pred             HHHHHHHhc-----------------------ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecC
Confidence            111111111                       223477777774321  1111111000                   00


Q ss_pred             CCCceEEEEeCchhHhhhc--CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          141 GLGSMIIITTRDEHLLKLH--RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       141 ~~~~~iiitsr~~~~~~~~--~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      .+.+.|..|++...+....  +....+.+++++.++..+++.........  ...++.+..|++.|+|.|..+..+...+
T Consensus       149 ~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~--~~~~~~~~~ia~~~~G~pR~a~~~l~~~  226 (328)
T PRK00080        149 PPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGV--EIDEEGALEIARRSRGTPRIANRLLRRV  226 (328)
T ss_pred             CCceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCC--CcCHHHHHHHHHHcCCCchHHHHHHHHH
Confidence            1223344455544332221  23457899999999999999987643322  2345779999999999998777666543


Q ss_pred             cCCChhHHHHHHH--HHccCCchhHHHHHHhhhccCcHhhhhhhh-hhccCCC-CCCHHHHHHHHHhcCCCchhchH-HH
Q 045677          219 FGRPVDQWRSTQE--RLKRDPENKILGILQISFDGLKEAEKNIFL-DVACFYK-WENRDYVSKILDSCGFDPIIGIS-VL  293 (352)
Q Consensus       219 ~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~-~ls~~~~-~~~~~~l~~~~~~~~~~~~~~l~-~L  293 (352)
                      ..     |.....  ......-......+...+..|++..+..+. .+..|.+ ++..+.++..++.+....+..++ .|
T Consensus       227 ~~-----~a~~~~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~L  301 (328)
T PRK00080        227 RD-----FAQVKGDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYL  301 (328)
T ss_pred             HH-----HHHHcCCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHH
Confidence            21     110000  000000012223345667788888888886 5555654 58999999999888888888898 99


Q ss_pred             hhccceeecCCCc
Q 045677          294 IEKSLLTVRENDR  306 (352)
Q Consensus       294 ~~~~li~~~~~~~  306 (352)
                      ++.|||+....|+
T Consensus       302 i~~~li~~~~~gr  314 (328)
T PRK00080        302 IQQGFIQRTPRGR  314 (328)
T ss_pred             HHcCCcccCCchH
Confidence            9999998776664

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

Probab=99.50  E-value=2.9e-12  Score=110.77  Aligned_cols=181  Identities=17%  Similarity=0.141  Sum_probs=106.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCcc--chhhhHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIR--NVYDGVNMIG  109 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~  109 (352)
                      .++++|+|++|+||||+++.++..+...-...+++.     ..... ...+...++..+.........  ....+...+.
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~-----~~~~~-~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLV-----NTRVD-AEDLLRMVAADFGLETEGRDKAALLRELEDFLI  116 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeee-----CCCCC-HHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHH
Confidence            468899999999999999999988763311122221     11122 245666666554332211110  1112222222


Q ss_pred             hh-hCCceEEEEEeCCCChh--hhhhhh---CCCCCCCCCceEEEEeCchhHhh--------h-cCcccEEecCCCCHhH
Q 045677          110 SR-LRHKKVLLLIDDVADVE--QLRGLF---GKRDWFGLGSMIIITTRDEHLLK--------L-HRVEEVYKLEALNFDE  174 (352)
Q Consensus       110 ~~-l~~~~~llvlDd~~~~~--~~~~l~---~~~~~~~~~~~iiitsr~~~~~~--------~-~~~~~~~~l~~l~~~e  174 (352)
                      .. ..+++.++|+||++...  .++.+.   ...........|++|........        . .+....+.+++++.+|
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence            22 25778999999997542  333332   22111123345566665432100        0 1124468899999999


Q ss_pred             HHHHHHhhhcCCC--CCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          175 AFRLFCLKAFDTY--KPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       175 ~~~ll~~~~~~~~--~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      ...++........  ......++.++.|++.|+|+|..|+.++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999987663222  1122456889999999999999999988876

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.

>PF14516 AAA_35: AAA-like domain

Probab=99.42  E-value=1.3e-10  Score=102.79  Aligned_cols=287  Identities=13%  Similarity=0.053  Sum_probs=157.3

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccccc-CCCcHHHH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCD-KEGSVISL   82 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l   82 (352)
                      -+..++.+|+|....+.+.+.+...   ...+.|.||..+|||+|+..+.+.+++.....+++ ++..... .......+
T Consensus         6 ~~~~~~~Yi~R~~~e~~~~~~i~~~---G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~i-d~~~~~~~~~~~~~~f   81 (331)
T PF14516_consen    6 LPLDSPFYIERPPAEQECYQEIVQP---GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYI-DLQQLGSAIFSDLEQF   81 (331)
T ss_pred             CCCCCCcccCchHHHHHHHHHHhcC---CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEE-EeecCCCcccCCHHHH
Confidence            3556677899997777777777732   36889999999999999999998886653333443 4444332 22233445


Q ss_pred             HHHHHHHHhcccCCC----------ccchhhhHHHHHhhh---CCceEEEEEeCCCChhh----hhhhhCCC----CC--
Q 045677           83 QKQLLSDLLMLADNS----------IRNVYDGVNMIGSRL---RHKKVLLLIDDVADVEQ----LRGLFGKR----DW--  139 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~l---~~~~~llvlDd~~~~~~----~~~l~~~~----~~--  139 (352)
                      +..++..+...-...          ..........+.+.+   .+++++|+||+++..-.    ..+++..+    ..  
T Consensus        82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~  161 (331)
T PF14516_consen   82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRK  161 (331)
T ss_pred             HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcc
Confidence            555554443322111          112223333343332   26899999999963211    11222111    10  


Q ss_pred             -C--CCCceEEEEeCchhH------hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          140 -F--GLGSMIIITTRDEHL------LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       140 -~--~~~~~iiitsr~~~~------~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                       .  -...++++....+..      .+..+....++|++++.+|+..|+.+....   .   .+..++.++.+++|+|+.
T Consensus       162 ~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~---~---~~~~~~~l~~~tgGhP~L  235 (331)
T PF14516_consen  162 NNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE---F---SQEQLEQLMDWTGGHPYL  235 (331)
T ss_pred             cCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc---C---CHHHHHHHHHHHCCCHHH
Confidence             0  112233333222111      111233457999999999999998776422   1   123399999999999999


Q ss_pred             HHHHHHhhcCCChhHHHHHHHHHccCCchhHHHHHHhhhccC--cHhhhhhhhhhccCCCCCCHHHHHHHHHhc--CCCc
Q 045677          211 VDVLVSFLFGRPVDQWRSTQERLKRDPENKILGILQISFDGL--KEAEKNIFLDVACFYKWENRDYVSKILDSC--GFDP  286 (352)
Q Consensus       211 i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L--~~~~~~~l~~ls~~~~~~~~~~l~~~~~~~--~~~~  286 (352)
                      +..++..+.++.. .....++.-.... .....-++.-+..|  .+..+..+               ..++...  ....
T Consensus       236 v~~~~~~l~~~~~-~~~~l~~~a~~~~-~~~~~hL~~l~~~L~~~~~L~~~~---------------~~il~~~~~~~~~  298 (331)
T PF14516_consen  236 VQKACYLLVEEQI-TLEQLLEEAITDN-GIYNDHLDRLLDRLQQNPELLEAY---------------QQILFSGEPVDLD  298 (331)
T ss_pred             HHHHHHHHHHccC-cHHHHHHHHHHhc-ccHHHHHHHHHHHHccCHHHHHHH---------------HHHHhCCCCcccC
Confidence            9999999977421 1222222211110 11122333333333  12222222               2222211  1112


Q ss_pred             hhchHHHhhccceeecCCCceehhHHHHHHH
Q 045677          287 IIGISVLIEKSLLTVRENDRLWMHDLLQEMG  317 (352)
Q Consensus       287 ~~~l~~L~~~~li~~~~~~~~~~H~lir~~~  317 (352)
                      ......|...|||...++.-..-.++.|++.
T Consensus       299 ~~~~~~L~~~GLV~~~~~~~~~~n~iY~~yF  329 (331)
T PF14516_consen  299 SDDIYKLESLGLVKRDGNQLEVRNPIYRQYF  329 (331)
T ss_pred             hHHHHHHHHCCeEEEeCCEEEEEcHHHHHHh
Confidence            3456789999999999444334456777665

>PF05729 NACHT: NACHT domain

Probab=99.38  E-value=5.3e-12  Score=100.79  Aligned_cols=143  Identities=24%  Similarity=0.334  Sum_probs=84.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCc-----ceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFD-----GSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNM  107 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (352)
                      |+++|+|++|+|||+++..++..+.....     ..+++...+........ ..+...+......    .......   .
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~l~~~~~~----~~~~~~~---~   72 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNS-RSLADLLFDQLPE----SIAPIEE---L   72 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhcccc-chHHHHHHHhhcc----chhhhHH---H
Confidence            57899999999999999999988655532     23334444444333222 2233333322211    1111111   1


Q ss_pred             HHh-hhCCceEEEEEeCCCChhh---------hhhhhC-CCCC-CCCCceEEEEeCchhH---hhhcCcccEEecCCCCH
Q 045677          108 IGS-RLRHKKVLLLIDDVADVEQ---------LRGLFG-KRDW-FGLGSMIIITTRDEHL---LKLHRVEEVYKLEALNF  172 (352)
Q Consensus       108 ~~~-~l~~~~~llvlDd~~~~~~---------~~~l~~-~~~~-~~~~~~iiitsr~~~~---~~~~~~~~~~~l~~l~~  172 (352)
                      +.. .....+++||||++++...         +..++. .+.. ...++++++|+|....   .........+.+.+|+.
T Consensus        73 ~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~  152 (166)
T PF05729_consen   73 LQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSE  152 (166)
T ss_pred             HHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCH
Confidence            111 2246899999999964322         222222 2221 2568899999997655   22234446899999999


Q ss_pred             hHHHHHHHhhh
Q 045677          173 DEAFRLFCLKA  183 (352)
Q Consensus       173 ~e~~~ll~~~~  183 (352)
                      ++..+++++..
T Consensus       153 ~~~~~~~~~~f  163 (166)
T PF05729_consen  153 EDIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHHh
Confidence            99999997764

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.31  E-value=2.7e-10  Score=101.92  Aligned_cols=207  Identities=14%  Similarity=0.055  Sum_probs=113.3

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-+.++|++..++.|.+++..  +..+.++++||+|+|||++|..+++.+.... .......++........  ..+.
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~--~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~--~~~~   86 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDS--PNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGK--KYLV   86 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcch--hhhh
Confidence            33446789999999999998884  3445688999999999999999998865332 22222222211110000  0000


Q ss_pred             --HHHHHHHhcccCCCccchhhhHHHHHhh---h--CCceEEEEEeCCCChh--hhhhhhCCCCCCCCCceEEEEeCch-
Q 045677           84 --KQLLSDLLMLADNSIRNVYDGVNMIGSR---L--RHKKVLLLIDDVADVE--QLRGLFGKRDWFGLGSMIIITTRDE-  153 (352)
Q Consensus        84 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~---l--~~~~~llvlDd~~~~~--~~~~l~~~~~~~~~~~~iiitsr~~-  153 (352)
                        ..+...+.................+...   .  ...+-+|||||++...  ....+...+......+++|+++... 
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  166 (337)
T PRK12402         87 EDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPS  166 (337)
T ss_pred             cCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChh
Confidence              0000000000000000111111111111   1  1334589999996442  2333333333334556777776543 


Q ss_pred             hHhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          154 HLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       154 ~~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .+.. .......+.+.+++.++...++.+.+......  ..++.++.+++.++|++-.+......
T Consensus       167 ~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~~~al~~l~~~~~gdlr~l~~~l~~  229 (337)
T PRK12402        167 KLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YDDDGLELIAYYAGGDLRKAILTLQT  229 (337)
T ss_pred             hCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2222 22334678899999999999998865322221  33578889999999998877654443

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

Probab=99.29  E-value=3.9e-11  Score=103.84  Aligned_cols=170  Identities=23%  Similarity=0.375  Sum_probs=103.7

Q ss_pred             cCcccccHHH---HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRL---EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l---~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +.+||.+..+   +-|.+.+.  .+......+|||||+||||||+.++......|...         +...+.+.++ +.
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~--~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~---------sAv~~gvkdl-r~   91 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVE--AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEAL---------SAVTSGVKDL-RE   91 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHh--cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEe---------ccccccHHHH-HH
Confidence            4466666555   23444455  45667788999999999999999998877664321         1112221222 22


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEE--EeCchhH---hhh
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIII--TTRDEHL---LKL  158 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iii--tsr~~~~---~~~  158 (352)
                      ++...                 -.....+++++|++|+++  +..+-+.|++.+.   .|..++|  ||-++..   ...
T Consensus        92 i~e~a-----------------~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~AL  151 (436)
T COG2256          92 IIEEA-----------------RKNRLLGRRTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPAL  151 (436)
T ss_pred             HHHHH-----------------HHHHhcCCceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHH
Confidence            22210                 122234789999999995  5555666666653   4555555  4544421   112


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCC-----CCchhHHHHHHHHHHHcCCCchh
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTY-----KPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~-----~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .....++.|++|+.++...++.+......     ......++..+.++..++|--..
T Consensus       152 lSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         152 LSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             hhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence            34567899999999999999987331111     11113456778888888885543

>PRK06893 DNA replication initiation factor; Validated

Probab=99.27  E-value=2.6e-10  Score=95.61  Aligned_cols=154  Identities=17%  Similarity=0.192  Sum_probs=93.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      .+.+.|+|++|+|||+|+..+++.+..+.....|+.. ..   .    ......+                      .+.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~-~~---~----~~~~~~~----------------------~~~   88 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL-SK---S----QYFSPAV----------------------LEN   88 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH-HH---h----hhhhHHH----------------------Hhh
Confidence            4678999999999999999999987655544555541 10   0    0000011                      111


Q ss_pred             hCCceEEEEEeCCCCh---hhhh-hhhCCCCCC-CCCceEE-EEeCc---------hhHhhhcCcccEEecCCCCHhHHH
Q 045677          112 LRHKKVLLLIDDVADV---EQLR-GLFGKRDWF-GLGSMII-ITTRD---------EHLLKLHRVEEVYKLEALNFDEAF  176 (352)
Q Consensus       112 l~~~~~llvlDd~~~~---~~~~-~l~~~~~~~-~~~~~ii-itsr~---------~~~~~~~~~~~~~~l~~l~~~e~~  176 (352)
                      + .+.-+|+|||++..   ..|. .++..+... ..+..+| +|+..         +.+.+.+.....+++++++.++.+
T Consensus        89 ~-~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~  167 (229)
T PRK06893         89 L-EQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKI  167 (229)
T ss_pred             c-ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHH
Confidence            1 12349999999743   2333 232322211 2344554 45543         123333344568899999999999


Q ss_pred             HHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          177 RLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       177 ~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      +++++.+......  ..++..+-|++.+.|..-.+..+...+
T Consensus       168 ~iL~~~a~~~~l~--l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        168 IVLQRNAYQRGIE--LSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            9999877543322  345788889999999888776665544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.26  E-value=6.6e-10  Score=105.66  Aligned_cols=284  Identities=15%  Similarity=0.106  Sum_probs=146.0

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-----Cc-ceeEeeecccccc
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-----FD-GSSFLADVRERCD   74 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-----~~-~~~~~~~~~~~~~   74 (352)
                      +...|+.+.||+.|+++|...|..   ..+...+++|+|++|+|||+.+..+...+...     .. ..+.+.++.....
T Consensus       750 ~DYVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lst  829 (1164)
T PTZ00112        750 LDVVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVH  829 (1164)
T ss_pred             cccCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCC
Confidence            456788999999999999998885   23334567899999999999999998876432     11 2222333322222


Q ss_pred             CCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC---CceEEEEEeCCCChh-----hhhhhhCCCCCCCCCce-
Q 045677           75 KEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR---HKKVLLLIDDVADVE-----QLRGLFGKRDWFGLGSM-  145 (352)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~llvlDd~~~~~-----~~~~l~~~~~~~~~~~~-  145 (352)
                      .    ..+...+..++....+............+...+.   ....+||||+++...     .+-.++....  ..+++ 
T Consensus       830 p----~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKL  903 (1164)
T PTZ00112        830 P----NAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKL  903 (1164)
T ss_pred             H----HHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeE
Confidence            2    4455555555543332222223334444444432   235699999996332     2222232222  12333 


Q ss_pred             -EEEEeCchh----HhhhcC---cccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHH---HcCCC-chhHHH
Q 045677          146 -IIITTRDEH----LLKLHR---VEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVK---YASGL-PLAVDV  213 (352)
Q Consensus       146 -iiitsr~~~----~~~~~~---~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~---~~~G~-Pl~i~~  213 (352)
                       +|.++.+..    +.+...   ....+..+|++.++..+++..++....  ....+++++.+++   ...|- =.||.+
T Consensus       904 iLIGISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~--gVLdDdAIELIArkVAq~SGDARKALDI  981 (1164)
T PTZ00112        904 VLIAISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCK--EIIDHTAIQLCARKVANVSGDIRKALQI  981 (1164)
T ss_pred             EEEEecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCC--CCCCHHHHHHHHHhhhhcCCHHHHHHHH
Confidence             333343211    111111   122467799999999999998874321  1122344444443   33343 333333


Q ss_pred             HHHhhc--CCC---hhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCCC-----CCCHHHHH----HHH
Q 045677          214 LVSFLF--GRP---VDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYK-----WENRDYVS----KIL  279 (352)
Q Consensus       214 ~~~~l~--~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~-----~~~~~~l~----~~~  279 (352)
                      +-.+..  +..   .+....+.+.+       ....+...+..||.+.+.+|..+...-.     .++...+.    .++
T Consensus       982 LRrAgEikegskVT~eHVrkAleei-------E~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lc 1054 (1164)
T PTZ00112        982 CRKAFENKRGQKIVPRDITEATNQL-------FDSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLV 1054 (1164)
T ss_pred             HHHHHhhcCCCccCHHHHHHHHHHH-------HhhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHH
Confidence            322221  111   11122221111       1223455677899998888775543211     23333322    222


Q ss_pred             H-------hcCCC--chhchHHHhhccceeec
Q 045677          280 D-------SCGFD--PIIGISVLIEKSLLTVR  302 (352)
Q Consensus       280 ~-------~~~~~--~~~~l~~L~~~~li~~~  302 (352)
                      .       .+...  ....+.+|...|+|-..
T Consensus      1055 e~~Gk~iGv~plTqRV~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1055 ETSGKYIGMCSNNELFKIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             HhhhhhcCCCCcHHHHHHHHHHHHhcCeEEec
Confidence            2       11111  23457788888888644

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

Probab=99.25  E-value=2.5e-09  Score=95.13  Aligned_cols=289  Identities=17%  Similarity=0.171  Sum_probs=163.2

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcce-eEeeeccccccCCCcH
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGS-SFLADVRERCDKEGSV   79 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   79 (352)
                      .+...|..+.+|+.+++++...|..  .++.+.-++|+|++|+|||+.++.+.+++....... +.+.++......    
T Consensus        11 ~~~~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~----   86 (366)
T COG1474          11 LEDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTP----   86 (366)
T ss_pred             CCCCCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCH----
Confidence            4667788899999999999988876  334444599999999999999999999987664433 444444333333    


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC--CceEEEEEeCCCChh-----hhhhhhCCCCCCCCCceEEEEeCc
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADVE-----QLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~~-----~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      .++...++.++...+ .......+....+.+.+.  +..+++|||+++...     .+-.+...........-+|..+-+
T Consensus        87 ~~i~~~i~~~~~~~p-~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~  165 (366)
T COG1474          87 YQVLSKILNKLGKVP-LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSND  165 (366)
T ss_pred             HHHHHHHHHHcCCCC-CCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEecc
Confidence            667777777765222 222334444555555553  578999999995332     223333332222112223333333


Q ss_pred             hhHhhhcC-------cccEEecCCCCHhHHHHHHHhhhcCCCCC---chhHHHHHHHHHHHcCCCc-hhHHHH--HHhhc
Q 045677          153 EHLLKLHR-------VEEVYKLEALNFDEAFRLFCLKAFDTYKP---LEEYLELAKCFVKYASGLP-LAVDVL--VSFLF  219 (352)
Q Consensus       153 ~~~~~~~~-------~~~~~~l~~l~~~e~~~ll~~~~~~~~~~---~~~~~~~~~~i~~~~~G~P-l~i~~~--~~~l~  219 (352)
                      ........       ....+..+|.+.+|..+++..+.......   ....-+.+..+....+|-- .||..+  +..+.
T Consensus       166 ~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiA  245 (366)
T COG1474         166 DKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIA  245 (366)
T ss_pred             HHHHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHH
Confidence            32211111       12347899999999999999887433222   2222334444555555522 222221  11111


Q ss_pred             C-C-----ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCCCCCCHHHH----HHHHHhcCC---Cc
Q 045677          220 G-R-----PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYV----SKILDSCGF---DP  286 (352)
Q Consensus       220 ~-~-----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~~~~~~~l----~~~~~~~~~---~~  286 (352)
                      + .     ..+.......       ..-...+...+..|+.+++.++........+++...+    ..++...+.   ..
T Consensus       246 e~~~~~~v~~~~v~~a~~-------~~~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~  318 (366)
T COG1474         246 EREGSRKVSEDHVREAQE-------EIERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRF  318 (366)
T ss_pred             HhhCCCCcCHHHHHHHHH-------HhhHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHH
Confidence            1 1     0111111111       1112245556888999888887766655344443333    334433444   33


Q ss_pred             hhchHHHhhccceeecC
Q 045677          287 IIGISVLIEKSLLTVRE  303 (352)
Q Consensus       287 ~~~l~~L~~~~li~~~~  303 (352)
                      ...+++|.-.|+|....
T Consensus       319 ~~ii~~L~~lgiv~~~~  335 (366)
T COG1474         319 SDIISELEGLGIVSASL  335 (366)
T ss_pred             HHHHHHHHhcCeEEeee
Confidence            45688999999998543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.23  E-value=5.6e-10  Score=102.09  Aligned_cols=181  Identities=21%  Similarity=0.317  Sum_probs=109.6

Q ss_pred             CCCCcCcccccHHHHH---HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEK---LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~---l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-+.|||++..+..   |..++..  ...+.++|+|++|+||||||+.+++.....|.   .+. .  .   ... ..
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~--~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~---~l~-a--~---~~~-~~   75 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEA--GRLSSMILWGPPGTGKTTLARIIAGATDAPFE---ALS-A--V---TSG-VK   75 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHc--CCCceEEEECCCCCCHHHHHHHHHHHhCCCEE---EEe-c--c---ccc-HH
Confidence            3445679999988776   8888873  44567889999999999999999987654431   111 0  1   001 11


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHh-hhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEE-E-eCchh--
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGS-RLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIII-T-TRDEH--  154 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iii-t-sr~~~--  154 (352)
                      .++.+...                  ... ...+++.+|+||+++..  ...+.++..+.   .+..++| + |.+..  
T Consensus        76 ~ir~ii~~------------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~  134 (413)
T PRK13342         76 DLREVIEE------------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFE  134 (413)
T ss_pred             HHHHHHHH------------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhh
Confidence            11112111                  111 11357789999999743  34455555443   2333444 2 33321  


Q ss_pred             H-hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCC-chhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          155 L-LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKP-LEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       155 ~-~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~-~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      + .........+.+.+++.++...++.+........ ....++..+.+++.++|.+..+..+....
T Consensus       135 l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~  200 (413)
T PRK13342        135 VNPALLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELA  200 (413)
T ss_pred             ccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            1 1122345689999999999999998765321111 12345778899999999998876655443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.23  E-value=5.8e-10  Score=93.80  Aligned_cols=175  Identities=18%  Similarity=0.199  Sum_probs=103.6

Q ss_pred             cCccc--ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            9 KELVG--MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         9 ~~~vG--R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      ++|++  .+..++.+.+++.  ....+.++|+|++|+|||+||+.+++.........+++. +......       ...+
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~--~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~~~-------~~~~   84 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAA--GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELAQA-------DPEV   84 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHHHh-------HHHH
Confidence            34553  4446778888765  344578999999999999999999988654433333332 2221110       0001


Q ss_pred             HHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh---h-hhhhhCCCCC-CCCCceEEEEeCchhH------
Q 045677           87 LSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE---Q-LRGLFGKRDW-FGLGSMIIITTRDEHL------  155 (352)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~---~-~~~l~~~~~~-~~~~~~iiitsr~~~~------  155 (352)
                                            ...+. +.-+|||||++...   . ...+...+.. ...+..+|+|++....      
T Consensus        85 ----------------------~~~~~-~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~  141 (226)
T TIGR03420        85 ----------------------LEGLE-QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRL  141 (226)
T ss_pred             ----------------------Hhhcc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCccc
Confidence                                  01111 22389999996432   1 2233322211 1223478888774321      


Q ss_pred             ---hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          156 ---LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       156 ---~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                         .........+++++++.++...++.........  ...++.++.+.+.+.|+|..+..+...+
T Consensus       142 ~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~--~~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       142 PDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGL--QLPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence               111222457899999999999988875422211  2334777888889999999887765543

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=99.22  E-value=3e-09  Score=100.56  Aligned_cols=194  Identities=14%  Similarity=0.096  Sum_probs=116.3

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .=+++||.+..++.|.+++..+ .-.+.++++|+.|+||||++..+++.+....... . ..++.        =..+..+
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~~g-RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-~-~PCG~--------C~sCr~I   82 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALDGG-RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-S-QPCGV--------CRACREI   82 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHhcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-C-CCCcc--------cHHHHHH
Confidence            3356899999999999999853 2356778999999999999999998763221000 0 00000        0011111


Q ss_pred             HHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-H
Q 045677           87 LSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-L  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~  155 (352)
                      ...    +......+...+++..+.+...    ..++.-++|||+++..  ..++.++..+.....++++|++|.+.. +
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KI  162 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKI  162 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhc
Confidence            100    0000111111122222222211    1244568999999754  447778777766567888888777643 2


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch-hHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL-AVDV  213 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-~i~~  213 (352)
                      ... ...+..+.+++++.++..+.|.+.+.....  ....+.++.|.+.++|... +|.+
T Consensus       163 p~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI--~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        163 PVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI--AFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             cchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            222 345678999999999999999887632221  2345778899999999765 4444

>PLN03025 replication factor C subunit; Provisional

Probab=99.21  E-value=2.2e-09  Score=94.81  Aligned_cols=189  Identities=11%  Similarity=0.124  Sum_probs=110.2

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCCcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-..++|.+..++.|..++..  +..+.+.++||+|+|||++|..+++.+ ...+...+.-.+..   . ... .+.+
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~--~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~s---d-~~~-~~~v   81 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARD--GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNAS---D-DRG-IDVV   81 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccc---c-ccc-HHHH
Confidence            33446689999999999988874  344567899999999999999999886 33332222211111   0 001 1222


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hHhh-hc
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HLLK-LH  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~-~~  159 (352)
                      +..+..+......              ...++.-+++||+++..  ..-..+...+...+..+++|+++... .+.+ ..
T Consensus        82 r~~i~~~~~~~~~--------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~  147 (319)
T PLN03025         82 RNKIKMFAQKKVT--------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQ  147 (319)
T ss_pred             HHHHHHHHhcccc--------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHH
Confidence            2222211110000              00134569999999743  23333433333334556666665432 2222 12


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      .....+++++++.++....+...+......  ..++.+..+++.++|....+.....
T Consensus       148 SRc~~i~f~~l~~~~l~~~L~~i~~~egi~--i~~~~l~~i~~~~~gDlR~aln~Lq  202 (319)
T PLN03025        148 SRCAIVRFSRLSDQEILGRLMKVVEAEKVP--YVPEGLEAIIFTADGDMRQALNNLQ  202 (319)
T ss_pred             HhhhcccCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            235679999999999999888776332221  2346788999999998866654444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.21  E-value=2.2e-09  Score=95.27  Aligned_cols=185  Identities=14%  Similarity=0.142  Sum_probs=109.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      ..++|++..++.+..++..  +..+.++|+|++|+|||++++.++..+... +...+...+.   +... . .......+
T Consensus        17 ~~~~g~~~~~~~l~~~i~~--~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~---~~~~-~-~~~~~~~i   89 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKE--KNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNA---SDER-G-IDVIRNKI   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecc---cccc-c-hHHHHHHH
Confidence            5589999999999999984  333457999999999999999999886433 2111111111   1111 1 11111111


Q ss_pred             HHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hH-hhhcCccc
Q 045677           88 SDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HL-LKLHRVEE  163 (352)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~-~~~~~~~~  163 (352)
                      ..+....+               .....+-++++|+++..  .....+...+......+.+|+++... .+ ........
T Consensus        90 ~~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~  154 (319)
T PRK00440         90 KEFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCA  154 (319)
T ss_pred             HHHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhh
Confidence            11111000               00123569999999643  23344444444334556777766432 11 11123345


Q ss_pred             EEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          164 VYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       164 ~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .+.+++++.++...++...+.....  ...++.++.+++.++|.+.-+......
T Consensus       155 ~~~~~~l~~~ei~~~l~~~~~~~~~--~i~~~al~~l~~~~~gd~r~~~~~l~~  206 (319)
T PRK00440        155 VFRFSPLKKEAVAERLRYIAENEGI--EITDDALEAIYYVSEGDMRKAINALQA  206 (319)
T ss_pred             eeeeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            7899999999999998877633222  133577889999999998876544433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.17  E-value=8.1e-09  Score=92.77  Aligned_cols=197  Identities=16%  Similarity=0.137  Sum_probs=115.5

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |..-..++|.+..++.|...+..+ .-++.++++||+|+||||+|..+++.+.......   .      .+... -..+.
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~---~------~pc~~-c~~c~   80 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSLG-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT---S------NPCRK-CIICK   80 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHcC-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC---C------CCCCC-CHHHH
Confidence            334467899999999999988853 2356788999999999999999998864211000   0      00000 00011


Q ss_pred             HHHHH----HhcccCCCccchhhhHHHHHhhh-----CCceEEEEEeCCCChh--hhhhhhCCCCCCCCCceEEEEeCch
Q 045677           85 QLLSD----LLMLADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVADVE--QLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus        85 ~~~~~----~~~~~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~~~--~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      .+...    +............+.. .+.+.+     .++.-++|||+++...  .+..++..+...+...++|++|.+.
T Consensus        81 ~~~~~~~~d~~~~~~~~~~~v~~ir-~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~  159 (363)
T PRK14961         81 EIEKGLCLDLIEIDAASRTKVEEMR-EILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDV  159 (363)
T ss_pred             HHhcCCCCceEEecccccCCHHHHH-HHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCCh
Confidence            11100    0000000001111111 111111     2345699999997543  4667777776656677777766543


Q ss_pred             -hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          154 -HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       154 -~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                       .+... ......+++++++.++..+.+...+....  ....++.++.|+..++|.|..+....
T Consensus       160 ~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g--~~i~~~al~~ia~~s~G~~R~al~~l  221 (363)
T PRK14961        160 EKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKES--IDTDEYALKLIAYHAHGSMRDALNLL  221 (363)
T ss_pred             HhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             33222 23457899999999999998887653222  11234678889999999997655443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.16  E-value=2.9e-09  Score=99.48  Aligned_cols=195  Identities=19%  Similarity=0.130  Sum_probs=116.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-..+||.+...+.|..++..+. -.+.++++|++|+||||+|+.+++.+........--++.          -..+..+
T Consensus        13 tFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~----------C~sC~~I   81 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEV----------CATCKAV   81 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCcc----------CHHHHHH
Confidence            33568999999999999998532 357889999999999999999998863221000000000          0011111


Q ss_pred             HHH----HhcccCCCccchhhhHHHHHh---h-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-H
Q 045677           87 LSD----LLMLADNSIRNVYDGVNMIGS---R-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-L  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~~~~~~~~~~~~---~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~  155 (352)
                      ...    +......+...+.+..+.+..   . ..++.-++|||+++..  .....++..+.....++.+|+++.+.. +
T Consensus        82 ~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kI  161 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKL  161 (702)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhh
Confidence            100    000000111112221111111   1 1245669999999743  456777777665566778887776542 2


Q ss_pred             h-hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          156 L-KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       156 ~-~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      . .....+..+++.+++.++....+...+.....  ....+.+..|++.++|.+..+...
T Consensus       162 p~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI--~id~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        162 PITVISRCLQFTLRPLAVDEITKHLGAILEKEQI--AADQDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             hHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            2 22345678999999999999999876633221  234577889999999988666543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.15  E-value=4e-09  Score=95.71  Aligned_cols=196  Identities=12%  Similarity=0.085  Sum_probs=117.8

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-..+||.+..++.|..++..+. -.+.++++|++|+||||+|+.+++.+........-.++.  .        ..+..+
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~--C--------~sC~~i   84 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNE--C--------TSCLEI   84 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCC--C--------cHHHHH
Confidence            34568999999999999988532 245689999999999999999998864321100000000  0        001111


Q ss_pred             HHH----Hhccc---CCCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc-hhH
Q 045677           87 LSD----LLMLA---DNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD-EHL  155 (352)
Q Consensus        87 ~~~----~~~~~---~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~-~~~  155 (352)
                      ...    +....   ....+.+.++.+.+... ..++.-++|||+++  +.+.+..++..+......+.+|++|.+ ..+
T Consensus        85 ~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI  164 (484)
T PRK14956         85 TKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKI  164 (484)
T ss_pred             HccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhc
Confidence            110    00000   01111222222222211 23566799999997  445688888777665566666655553 333


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ... ...+..+.+.+++.++..+.+...+....  ....++.+..|++.++|.+.-...+.
T Consensus       165 ~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg--i~~e~eAL~~Ia~~S~Gd~RdAL~lL  223 (484)
T PRK14956        165 PETILSRCQDFIFKKVPLSVLQDYSEKLCKIEN--VQYDQEGLFWIAKKGDGSVRDMLSFM  223 (484)
T ss_pred             cHHHHhhhheeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCChHHHHHHHH
Confidence            222 34456799999999999998888763222  22345778999999999986554443

>PRK08727 hypothetical protein; Validated

Probab=99.14  E-value=2.7e-09  Score=89.74  Aligned_cols=170  Identities=16%  Similarity=0.122  Sum_probs=98.5

Q ss_pred             ccccc-HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHH
Q 045677           11 LVGME-SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSD   89 (352)
Q Consensus        11 ~vGR~-~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (352)
                      |++.. ..+..+.....  +.....++|+|++|+|||+|+..+++...+......|+. ..          +....+.. 
T Consensus        21 f~~~~~n~~~~~~~~~~--~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-~~----------~~~~~~~~-   86 (233)
T PRK08727         21 YIAAPDGLLAQLQALAA--GQSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-LQ----------AAAGRLRD-   86 (233)
T ss_pred             ccCCcHHHHHHHHHHHh--ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-HH----------HhhhhHHH-
Confidence            55444 44444444433  223467999999999999999999988766644445543 11          11111110 


Q ss_pred             HhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----hhhhhhhCCCCC-CCCCceEEEEeCchh---------H
Q 045677           90 LLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----EQLRGLFGKRDW-FGLGSMIIITTRDEH---------L  155 (352)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----~~~~~l~~~~~~-~~~~~~iiitsr~~~---------~  155 (352)
                                       .+. .+ .+.-+|||||++..    ..-..++..+.. ...+..+|+|++...         +
T Consensus        87 -----------------~~~-~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL  147 (233)
T PRK08727         87 -----------------ALE-AL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDL  147 (233)
T ss_pred             -----------------HHH-HH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHH
Confidence                             000 11 12248999999532    122233332221 123567999888532         1


Q ss_pred             hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          156 LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       156 ~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      .+.......+++++++.++..+++++.+.....  ...++.++.+++.++|-.-.+..+.
T Consensus       148 ~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l--~l~~e~~~~La~~~~rd~r~~l~~L  205 (233)
T PRK08727        148 RSRLAQCIRIGLPVLDDVARAAVLRERAQRRGL--ALDEAAIDWLLTHGERELAGLVALL  205 (233)
T ss_pred             HHHHhcCceEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            122223568899999999999999986643222  2345778888888887766654433

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.14  E-value=1.5e-09  Score=91.34  Aligned_cols=172  Identities=17%  Similarity=0.168  Sum_probs=98.0

Q ss_pred             cCcccccHHH-HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHH
Q 045677            9 KELVGMESRL-EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus         9 ~~~vGR~~~l-~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      +.+.|+..+. ..+.++... ....+.++|+|++|+|||+||..+++..........++. ...          ....+ 
T Consensus        19 ~f~~~~~~~~~~~l~~~~~~-~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~-~~~----------~~~~~-   85 (227)
T PRK08903         19 NFVAGENAELVARLRELAAG-PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD-AAS----------PLLAF-   85 (227)
T ss_pred             ccccCCcHHHHHHHHHHHhc-cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe-hHH----------hHHHH-
Confidence            3344665554 444444442 233467899999999999999999988644433333333 111          10000 


Q ss_pred             HHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCC-CCCc-eEEEEeCchhHhh------
Q 045677           88 SDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWF-GLGS-MIIITTRDEHLLK------  157 (352)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~-~~~~-~iiitsr~~~~~~------  157 (352)
                                            .. ....-+|+|||++..  .....+...+... ..+. .+|+|++......      
T Consensus        86 ----------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L  142 (227)
T PRK08903         86 ----------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDL  142 (227)
T ss_pred             ----------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHH
Confidence                                  00 122347999999533  2222332322211 1233 3666665432111      


Q ss_pred             --hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          158 --LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       158 --~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                        .......+++++++.++-..++.+......  ....++.++.+++.+.|++..+..+...+
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              122246899999999887777776442211  12345788889999999999887776654

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.14  E-value=7.8e-09  Score=95.95  Aligned_cols=201  Identities=16%  Similarity=0.094  Sum_probs=115.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEeeeccc-cccCCCcHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLADVRE-RCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~l~   83 (352)
                      .-+.++|.+..++.|..++..+. -.+.++++|++|+||||+|..+++.+...  ....++.+.... .......  +  
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~--d--   86 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHP--D--   86 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCC--c--
Confidence            33568999999999999888532 34667999999999999999999886421  112222221100 0000000  0  


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHh-hhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCc-hhHhhh-
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGS-RLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRD-EHLLKL-  158 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~~-  158 (352)
                        + ..+..........+.++...+.. -..+++-++|||+++..  ..+..++..+......+.+|+++.. ..+... 
T Consensus        87 --v-~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I  163 (504)
T PRK14963         87 --V-LEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTI  163 (504)
T ss_pred             --e-EEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHH
Confidence              0 00000000011111221111111 01245669999999743  4577777666554556666655543 333222 


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      ......+++.+++.++...++...+......  ..++.+..|++.++|.+.-+......
T Consensus       164 ~SRc~~~~f~~ls~~el~~~L~~i~~~egi~--i~~~Al~~ia~~s~GdlR~aln~Lek  220 (504)
T PRK14963        164 LSRTQHFRFRRLTEEEIAGKLRRLLEAEGRE--AEPEALQLVARLADGAMRDAESLLER  220 (504)
T ss_pred             hcceEEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2345689999999999999998876332221  23477899999999999876544433

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.13  E-value=8e-09  Score=96.37  Aligned_cols=200  Identities=14%  Similarity=0.084  Sum_probs=117.3

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-+++||.+..++.|.+++..+. -.+.++++|+.|+||||+|+.+++.+........  ...  .....+. -..+..+
T Consensus        14 tFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~--~g~--~~~PCG~-C~sC~~I   87 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGE--GGI--TAQPCGQ-CRACTEI   87 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccc--ccC--CCCCCcc-cHHHHHH
Confidence            33568999999999999998532 3467789999999999999999988643110000  000  0000000 0111111


Q ss_pred             HHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc-hhH
Q 045677           87 LSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD-EHL  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~-~~~  155 (352)
                      ...    +......+...+++..+.+...    ..++.-++|||+++.  ....+.|+..+.....++.+|++|.+ ..+
T Consensus        88 ~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kL  167 (700)
T PRK12323         88 DAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKI  167 (700)
T ss_pred             HcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhh
Confidence            100    0000111111222222222211    134567999999974  45678888888766677776665554 333


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ... ...+..+.++.++.++..+.+.+.+.....  ....+.++.|++.++|.|.-...+
T Consensus       168 lpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi--~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        168 PVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI--AHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            333 244678999999999999988876532211  123466788999999999755444

>PRK04195 replication factor C large subunit; Provisional

Probab=99.13  E-value=6.1e-09  Score=97.16  Aligned_cols=218  Identities=15%  Similarity=0.151  Sum_probs=124.8

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-..++|++..++.|.+|+..  .+...+.++|+||+|+|||++|..+++.+...    +...+..+    ... ...
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~~~----~ielnasd----~r~-~~~   80 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWE----VIELNASD----QRT-ADV   80 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC----EEEEcccc----ccc-HHH
Confidence            44446689999999999999875  22236889999999999999999999887422    12222111    111 122


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh------hhhhhhCCCCCCCCCceEEEEeCch-hH
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE------QLRGLFGKRDWFGLGSMIIITTRDE-HL  155 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~------~~~~l~~~~~~~~~~~~iiitsr~~-~~  155 (352)
                      +..++........               .....+-+||||+++...      .+..+...+.  ..+..+|+++.+. ..
T Consensus        81 i~~~i~~~~~~~s---------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~  143 (482)
T PRK04195         81 IERVAGEAATSGS---------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDP  143 (482)
T ss_pred             HHHHHHHhhccCc---------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCcccc
Confidence            2232222111100               001356799999996432      2444444433  2334455555432 11


Q ss_pred             h--hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCC-ChhHHHHHHHH
Q 045677          156 L--KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGR-PVDQWRSTQER  232 (352)
Q Consensus       156 ~--~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~-~~~~~~~~~~~  232 (352)
                      .  ..-.....+.+++++.++....+...+......  ..++.++.|++.++|....+......+... ..-........
T Consensus       144 ~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~--i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~  221 (482)
T PRK04195        144 SLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE--CDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTL  221 (482)
T ss_pred             chhhHhccceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHh
Confidence            1  222345689999999999999888776332222  235778999999999888776555544332 21112211112


Q ss_pred             HccCCchhHHHHHHhhhc
Q 045677          233 LKRDPENKILGILQISFD  250 (352)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~  250 (352)
                      ...+...+++.++...+.
T Consensus       222 ~~~d~~~~if~~l~~i~~  239 (482)
T PRK04195        222 GRRDREESIFDALDAVFK  239 (482)
T ss_pred             hcCCCCCCHHHHHHHHHC
Confidence            223334555555555444

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.12  E-value=1.6e-08  Score=97.56  Aligned_cols=194  Identities=18%  Similarity=0.099  Sum_probs=119.4

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-Ccc--eeEeeeccccccCCCcHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDG--SSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ..-..+||.+..++.|.+++..+ .-.+.++++|++|+||||+|+.+++.+... ...  .+..+             ..
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~-rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C-------------~s   78 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQ-RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVC-------------SS   78 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhC-CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCc-------------hH
Confidence            33466899999999999988843 234667899999999999999999886432 100  01111             00


Q ss_pred             HHHHHHHH----hcccC---CCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677           83 QKQLLSDL----LMLAD---NSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        83 ~~~~~~~~----~~~~~---~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      +..+....    .....   .....+..+...+... ..++.-++|||+++  +......|+..+.....++++|++|.+
T Consensus        79 C~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe  158 (944)
T PRK14949         79 CVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTD  158 (944)
T ss_pred             HHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCC
Confidence            00000000    00000   1111222222222211 23567799999996  456678888887766677777766554


Q ss_pred             h-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          153 E-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       153 ~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      . .+... ...+..+++++++.++....+...+....  .....+.++.|++.++|.|.-+..++
T Consensus       159 ~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg--I~~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        159 PQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ--LPFEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             chhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3 33322 33467899999999999999887653221  12334778899999999997665544

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.12  E-value=2.9e-08  Score=89.52  Aligned_cols=195  Identities=13%  Similarity=0.120  Sum_probs=114.7

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-C----cceeEeeeccccccCCCcH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-F----DGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~   79 (352)
                      |..-..++|.+..++.|.+++..+. -.+.++++|++|+|||++|..++..+... .    .++.+..            
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~------------   76 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECES------------   76 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHH------------
Confidence            4445678999999999999998532 34678899999999999999999876322 1    0110000            


Q ss_pred             HHHHHHHHHH----HhcccCC---CccchhhhHHHHHhh-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEE
Q 045677           80 ISLQKQLLSD----LLMLADN---SIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        80 ~~l~~~~~~~----~~~~~~~---~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiit  149 (352)
                         +..+...    +......   .......+.+.+... ..+.+-++|||+++..  .....++..+...+..+.+|++
T Consensus        77 ---c~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~  153 (355)
T TIGR02397        77 ---CKEINSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILA  153 (355)
T ss_pred             ---HHHHhcCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEE
Confidence               0000000    0000000   000111111111110 1234568999999644  4466666666544566666666


Q ss_pred             eCchh-Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          150 TRDEH-LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       150 sr~~~-~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      +.+.. +... ......+++++++.++..+++...+.....  ...++.+..+++.++|.|..+......
T Consensus       154 ~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~--~i~~~a~~~l~~~~~g~~~~a~~~lek  221 (355)
T TIGR02397       154 TTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI--KIEDEALELIARAADGSLRDALSLLDQ  221 (355)
T ss_pred             eCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCChHHHHHHHHH
Confidence            64432 2222 234567899999999999998876533221  123477888999999999877655443

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.

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

Probab=99.11  E-value=5e-10  Score=91.08  Aligned_cols=50  Identities=32%  Similarity=0.500  Sum_probs=35.6

Q ss_pred             CcccccHHHHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           10 ELVGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .||||+.++++|...+.. .....+.++|+|++|+|||+|+.+++..+..+
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            489999999999999943 34456899999999999999999999987766

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

Probab=99.11  E-value=4.2e-09  Score=87.28  Aligned_cols=258  Identities=20%  Similarity=0.227  Sum_probs=154.9

Q ss_pred             CCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .=..|||.+...+.|.-.+..   .++....++++||+|.||||||..+++++..+..    .. .+..-...    .-+
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k----~t-sGp~leK~----gDl   94 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLK----IT-SGPALEKP----GDL   94 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeE----ec-ccccccCh----hhH
Confidence            336799999888888777764   3445677999999999999999999999875531    11 11111111    111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-hhhhhh-CCCCCC--------CC-----------
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-QLRGLF-GKRDWF--------GL-----------  142 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-~~~~l~-~~~~~~--------~~-----------  142 (352)
                      ..++..+.                       .+=++++|+++-.. ..++++ +...++        ++           
T Consensus        95 aaiLt~Le-----------------------~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          95 AAILTNLE-----------------------EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             HHHHhcCC-----------------------cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCC
Confidence            22222211                       12277788885321 122221 111100        11           


Q ss_pred             CceEEEEeCchhHhhhc--CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC
Q 045677          143 GSMIIITTRDEHLLKLH--RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG  220 (352)
Q Consensus       143 ~~~iiitsr~~~~~~~~--~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~  220 (352)
                      -..|=-|||...+....  ++.-..++...+.+|...++.+.+.--  ..+..++.+.+|++++.|-|.--.-+.+..+.
T Consensus       152 FTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l--~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRD  229 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKIL--GIEIDEEAALEIARRSRGTPRIANRLLRRVRD  229 (332)
T ss_pred             eeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHh--CCCCChHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            22233588866544433  455678999999999999988776221  22234577899999999999755444333322


Q ss_pred             CChhHHHHHHHHHccC--Cch----hHHHHHHhhhccCcHhhhhhhhhhccCC--CCCCHHHHHHHHHhcCCCchhchHH
Q 045677          221 RPVDQWRSTQERLKRD--PEN----KILGILQISFDGLKEAEKNIFLDVACFY--KWENRDYVSKILDSCGFDPIIGISV  292 (352)
Q Consensus       221 ~~~~~~~~~~~~~~~~--~~~----~~~~~l~~~~~~L~~~~~~~l~~ls~~~--~~~~~~~l~~~~~~~~~~~~~~l~~  292 (352)
                               .......  ...    .....+...=..|....++.|..+.-..  +++..+.++..++-+....++.++.
T Consensus       230 ---------fa~V~~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EP  300 (332)
T COG2255         230 ---------FAQVKGDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEP  300 (332)
T ss_pred             ---------HHHHhcCCcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhH
Confidence                     1111111  111    1122233333456666777776665543  5678999988887777777777774


Q ss_pred             -HhhccceeecCCCce
Q 045677          293 -LIEKSLLTVRENDRL  307 (352)
Q Consensus       293 -L~~~~li~~~~~~~~  307 (352)
                       |++.|+++++..|+.
T Consensus       301 yLiq~gfi~RTpRGR~  316 (332)
T COG2255         301 YLIQQGFIQRTPRGRI  316 (332)
T ss_pred             HHHHhchhhhCCCcce
Confidence             999999999988864

>PTZ00202 tuzin; Provisional

Probab=99.10  E-value=1e-08  Score=90.77  Aligned_cols=169  Identities=14%  Similarity=0.083  Sum_probs=103.8

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCC-CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGS-NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~-~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      ..|+.+..|+||+.|++.|...|...+ +..+++.|+|++|+|||||++.+.....    ...++.+.+      + ..+
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr------g-~eE  324 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR------G-TED  324 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC------C-HHH
Confidence            357778999999999999999997532 3356999999999999999999986654    235555443      1 278


Q ss_pred             HHHHHHHHHhcccCCCcc-chhhhHHHHHhhh-C-CceEEEEEeCCC--Chhh-hhhhhCCCCCCCCCceEEEEeCchhH
Q 045677           82 LQKQLLSDLLMLADNSIR-NVYDGVNMIGSRL-R-HKKVLLLIDDVA--DVEQ-LRGLFGKRDWFGLGSMIIITTRDEHL  155 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l-~-~~~~llvlDd~~--~~~~-~~~l~~~~~~~~~~~~iiitsr~~~~  155 (352)
                      ++..++..++........ -...+.+.+.+.. . +++.+|||-=-+  +..- +.+.... .-...-|+|++----+.+
T Consensus       325 lLr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v~l-a~drr~ch~v~evplesl  403 (550)
T PTZ00202        325 TLRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVVAL-ACDRRLCHVVIEVPLESL  403 (550)
T ss_pred             HHHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHHHH-HccchhheeeeeehHhhc
Confidence            888898887753222211 1222233333222 2 566666654332  2111 1111111 101345677775443332


Q ss_pred             hhh---cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          156 LKL---HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       156 ~~~---~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ...   .+....+.+++++.+++.++.+...
T Consensus       404 t~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        404 TIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             chhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            221   2345678999999999999887665

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.10  E-value=4.7e-09  Score=96.42  Aligned_cols=191  Identities=14%  Similarity=0.104  Sum_probs=111.3

Q ss_pred             cCcccccHHH--HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRL--EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l--~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +..+|.....  ..+..+....+.....++|+|++|+|||+|++.+++.+... ....+.+...          ..+...
T Consensus       116 nFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~----------~~f~~~  185 (450)
T PRK14087        116 NFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG----------DEFARK  185 (450)
T ss_pred             cccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHH
Confidence            3456776553  33333433222334668999999999999999999876542 2222322211          234444


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----hhhhhhhCCCCC-CCCCceEEEEeCchh------
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----EQLRGLFGKRDW-FGLGSMIIITTRDEH------  154 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----~~~~~l~~~~~~-~~~~~~iiitsr~~~------  154 (352)
                      +...+....        .....+...+. ..-+|||||+...    ...+.++..++. ...+..||+|+...+      
T Consensus       186 ~~~~l~~~~--------~~~~~~~~~~~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l  256 (450)
T PRK14087        186 AVDILQKTH--------KEIEQFKNEIC-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGF  256 (450)
T ss_pred             HHHHHHHhh--------hHHHHHHHHhc-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhc
Confidence            444332210        11222333333 3348899999532    223344443332 133457888865331      


Q ss_pred             ---HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          155 ---LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       155 ---~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                         +.+.+...-...+++++.++..+++++.+..........++.++.|++.+.|.|..+..+...+
T Consensus       257 ~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        257 DNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             cHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence               2222334457889999999999999987743221113456889999999999999998766554

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.09  E-value=7.5e-09  Score=87.18  Aligned_cols=177  Identities=16%  Similarity=0.197  Sum_probs=101.2

Q ss_pred             CCcCcccccH-HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            7 IPKELVGMES-RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         7 ~~~~~vGR~~-~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..+.++|... .+..+.++...  ...+.+.|+|++|+|||+|+..+++..........|+. +...       ......
T Consensus        21 fd~f~~~~n~~a~~~l~~~~~~--~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~-~~~~-------~~~~~~   90 (235)
T PRK08084         21 FASFYPGDNDSLLAALQNALRQ--EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP-LDKR-------AWFVPE   90 (235)
T ss_pred             ccccccCccHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE-HHHH-------hhhhHH
Confidence            3334457443 33455555442  23467899999999999999999988765533344443 2110       000001


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hhhh-hhhCCCCCC--CCCceEEEEeCchh-----
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQLR-GLFGKRDWF--GLGSMIIITTRDEH-----  154 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~~~-~l~~~~~~~--~~~~~iiitsr~~~-----  154 (352)
                      +                  .+.+    .. --+|+|||++..   ..|+ .++..+...  ..+.++|+||+...     
T Consensus        91 ~------------------~~~~----~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~  147 (235)
T PRK08084         91 V------------------LEGM----EQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNL  147 (235)
T ss_pred             H------------------HHHh----hh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCc
Confidence            1                  1111    11 138999999532   2222 222222211  12347888887542     


Q ss_pred             ----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          155 ----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       155 ----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                          +.+.+.....+++.+++.++-.+++++.+....  ....++.++-+++.+.|..-.+..+...+
T Consensus       148 ~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~--~~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        148 GLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRG--FELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             ccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence                222233446899999999999999887553322  22345788889999998887776555443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.08  E-value=5.4e-09  Score=98.55  Aligned_cols=196  Identities=16%  Similarity=0.072  Sum_probs=114.8

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-+.+||.+..++.|..++..+ .-.+.++++|++|+||||+|+.+++.+....... ... ++.        -..+..+
T Consensus        14 tFddIIGQe~vv~~L~~ai~~~-rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-~~p-Cg~--------C~sCr~i   82 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDEG-RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQH-GEP-CGV--------CQSCTQI   82 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-CCC-Ccc--------cHHHHHH
Confidence            3356899999999999999853 2356789999999999999999998753221100 000 000        0000011


Q ss_pred             HHH----HhcccCCCcc---chhhhHHHHHhh-hCCceEEEEEeCCCChh--hhhhhhCCCCCCCCCceEEEEeCch-hH
Q 045677           87 LSD----LLMLADNSIR---NVYDGVNMIGSR-LRHKKVLLLIDDVADVE--QLRGLFGKRDWFGLGSMIIITTRDE-HL  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~---~~~~~~~~~~~~-l~~~~~llvlDd~~~~~--~~~~l~~~~~~~~~~~~iiitsr~~-~~  155 (352)
                      ...    +.........   .+.+++...... ..++.-++|||+++...  ....++..+......+++|++|.+. .+
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL  162 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKV  162 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCcccc
Confidence            000    0000001111   122222211111 12456699999997543  4566666665555677777776543 22


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ... ...+..+.+.+++.++....+.+.+.....  ...++.+..|++.++|.+..+....
T Consensus       163 ~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi--~id~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        163 PVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI--AYEPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             chHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC--CcCHHHHHHHHHHhCCCHHHHHHHH
Confidence            211 234457888999999999999877643221  2345778999999999997766544

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.08  E-value=1.2e-08  Score=90.93  Aligned_cols=200  Identities=14%  Similarity=0.103  Sum_probs=114.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCC-cceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEF-DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |...+.++|.+...+.|.+.+..+ .-.+.++++|+.|+||+++|..+++.+ ++.. .......... ....... -..
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~-~l~~~~~-c~~   91 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSG-RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT-SLAIDPD-HPV   91 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc-cccCCCC-ChH
Confidence            334467899999999999988853 234678899999999999999999875 3221 1100000000 0000000 012


Q ss_pred             HHHHHHHHhc------c---cCC----CccchhhhHHHHHhhh-----CCceEEEEEeCCC--ChhhhhhhhCCCCCCCC
Q 045677           83 QKQLLSDLLM------L---ADN----SIRNVYDGVNMIGSRL-----RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGL  142 (352)
Q Consensus        83 ~~~~~~~~~~------~---~~~----~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~  142 (352)
                      ++.+......      .   ...    ..-.+++ +..+...+     .+.+.++|||+++  +......++..+.....
T Consensus        92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~  170 (365)
T PRK07471         92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA  170 (365)
T ss_pred             HHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence            2222111000      0   000    0001111 22333332     2467799999996  45556777776665556


Q ss_pred             CceEEEEeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          143 GSMIIITTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       143 ~~~iiitsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ++.+|++|.+. .+.+. ......+.+.+++.++..+++......  ..    .+....++..++|+|.....+
T Consensus       171 ~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~--~~----~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        171 RSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD--LP----DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             CeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc--CC----HHHHHHHHHHcCCCHHHHHHH
Confidence            66666666544 33333 345678999999999999999876421  11    122367899999999865443

>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=99.07  E-value=6.7e-09  Score=86.30  Aligned_cols=194  Identities=18%  Similarity=0.180  Sum_probs=106.3

Q ss_pred             CCCCCCCcCcccccHHHH--HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCc
Q 045677            2 NSELEIPKELVGMESRLE--KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGS   78 (352)
Q Consensus         2 ~~~~~~~~~~vGR~~~l~--~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   78 (352)
                      |+..+....++|...+..  .........+.....++|+|++|+|||.|++.+++.+.+.+ ...+.+...         
T Consensus         2 n~~~tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~---------   72 (219)
T PF00308_consen    2 NPKYTFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA---------   72 (219)
T ss_dssp             -TT-SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH---------
T ss_pred             CCCCccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH---------
Confidence            445556666678755543  33333343333456689999999999999999999875432 223333222         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hhh-hhhhCCCCC-CCCCceEEEEeCch
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQL-RGLFGKRDW-FGLGSMIIITTRDE  153 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~~-~~l~~~~~~-~~~~~~iiitsr~~  153 (352)
                       ..+...+...+..      ..    ...+...+. .-=+|+|||++..   ..+ +.++..+.. ...+.++|+|+...
T Consensus        73 -~~f~~~~~~~~~~------~~----~~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~  140 (219)
T PF00308_consen   73 -EEFIREFADALRD------GE----IEEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRP  140 (219)
T ss_dssp             -HHHHHHHHHHHHT------TS----HHHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-
T ss_pred             -HHHHHHHHHHHHc------cc----chhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCC
Confidence             2333344333222      11    112223333 2338999999543   222 223222221 13467899998643


Q ss_pred             h---------HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          154 H---------LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       154 ~---------~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      +         +.+.....-.++|.+.+.++..+++++.+......  ..+++++-+++.+.+..-.|..+...+
T Consensus       141 P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  141 PSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGIE--LPEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             CccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC--CcHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            2         22223345689999999999999999877443332  445788888888888877776554443

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.07  E-value=4.4e-09  Score=93.27  Aligned_cols=200  Identities=16%  Similarity=0.126  Sum_probs=115.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |...+.++|-+...+.|...+..+. .++.++|+|+.|+|||++|..+++.+-.......--...   ...... ...+.
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~---~~~~~~-c~~c~   93 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETL---ADPDPA-SPVWR   93 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcccc---CCCCCC-CHHHH
Confidence            4455678999999999999988532 346789999999999999999998864421100000000   000000 11222


Q ss_pred             HHHHHHh-------ccc-CC-----CccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCc
Q 045677           85 QLLSDLL-------MLA-DN-----SIRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGS  144 (352)
Q Consensus        85 ~~~~~~~-------~~~-~~-----~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~  144 (352)
                      .+.....       ... ..     ..-.+++ +..+.+.+     .++.-++|||+++.  ....+.++..+...+.+.
T Consensus        94 ~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         94 QIAQGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHcCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            2221100       000 00     0001111 22233332     24667999999964  445666666665545556


Q ss_pred             eEEEEe-CchhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          145 MIIITT-RDEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       145 ~iiits-r~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      .+|+.| +...+.+. ......+++.+++.++..+++.+.....  .  ..++....+++.++|.|.....+
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            655544 43333332 2345689999999999999998854211  1  22456788999999999865443

>PRK05642 DNA replication initiation factor; Validated

Probab=99.07  E-value=7.7e-09  Score=86.98  Aligned_cols=181  Identities=14%  Similarity=0.144  Sum_probs=102.8

Q ss_pred             CCCCcCcccccHHHHHHHHHH-hcC-CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLM-CTG-SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l-~~~-~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ....+.++|.........+.+ ... ......++|+|++|+|||+|+..+++.+.+.....+|+. ..          ++
T Consensus        16 ~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~-~~----------~~   84 (234)
T PRK05642         16 ATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP-LA----------EL   84 (234)
T ss_pred             ccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee-HH----------HH
Confidence            334444557665544433322 211 112367899999999999999999987655444445543 11          11


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hhhh-hhhCCCCC-CCCCceEEEEeCchhH--
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQLR-GLFGKRDW-FGLGSMIIITTRDEHL--  155 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~~~-~l~~~~~~-~~~~~~iiitsr~~~~--  155 (352)
                      ...               ..    .+.+.+.+-. +|+|||+...   ..+. .++..++. ...+..+|+|++..+.  
T Consensus        85 ~~~---------------~~----~~~~~~~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l  144 (234)
T PRK05642         85 LDR---------------GP----ELLDNLEQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPREL  144 (234)
T ss_pred             Hhh---------------hH----HHHHhhhhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHc
Confidence            110               01    1222222222 7889999522   2332 23333322 1346678888874321  


Q ss_pred             -------hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          156 -------LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       156 -------~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                             .+.......+++++++.++...+++..+.....  ...++..+-+++.+.|..-.+..+...+
T Consensus       145 ~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~--~l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        145 PIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGL--HLTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             CccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence                   111223467899999999999999855533221  2335778888888888877776655544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.07  E-value=5.3e-08  Score=91.94  Aligned_cols=198  Identities=15%  Similarity=0.128  Sum_probs=116.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-c--ceeEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-D--GSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~--~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .=+++||-+..++.|.+++..+ .-.+.++++|+.|+||||+|+.+++.+-... .  ...-.       ...+. -..+
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~-------~pCg~-C~~C   84 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQ-RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA-------TPCGV-CQAC   84 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC-------CCCCc-cHHH
Confidence            3356899999999999998853 2346778999999999999999988753210 0  00000       00000 0111


Q ss_pred             HHHHHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc-
Q 045677           84 KQLLSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD-  152 (352)
Q Consensus        84 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~-  152 (352)
                      ..+...    +..........+++..+.+...    ..++.-++|||+++.  ......++..+......+.+|++|.+ 
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~  164 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDP  164 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCc
Confidence            111100    0000011111222222222111    123456899999974  45677888887766677777766543 


Q ss_pred             hhHh-hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          153 EHLL-KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       153 ~~~~-~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ..+. ........+++++++.++....+...+......  ...+.+..|++.++|.+..+....
T Consensus       165 ~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~--ie~~AL~~La~~s~GslR~al~lL  226 (618)
T PRK14951        165 QKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP--AEPQALRLLARAARGSMRDALSLT  226 (618)
T ss_pred             hhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3332 223456789999999999999998765322221  234678889999999887665543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.07  E-value=2.9e-08  Score=91.83  Aligned_cols=196  Identities=18%  Similarity=0.182  Sum_probs=115.3

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc--ce-eEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD--GS-SFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .=..++|.+..++.|...+..+ .-.+.++++|++|+||||+|+.+++.+.....  .. .+.. +. .       -..+
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~-C~-~-------C~~C   88 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILND-RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKT-CE-Q-------CTNC   88 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCC-CC-C-------ChHH
Confidence            3356799999999999877743 23467899999999999999999988632210  00 0000 00 0       0001


Q ss_pred             HHHHHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEE-EeCc
Q 045677           84 KQLLSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIII-TTRD  152 (352)
Q Consensus        84 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iii-tsr~  152 (352)
                      ..+...    +......+.....+....+...    ..+++-++|||+++.  ...+..++..+...+..+.+|+ |+..
T Consensus        89 ~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~  168 (507)
T PRK06645         89 ISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEV  168 (507)
T ss_pred             HHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCCh
Confidence            111100    0000011111222222222111    134567999999975  3457777777665556666655 4444


Q ss_pred             hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          153 EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       153 ~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ..+... ......+++.+++.++....+...+.....  ...++.+..|++.++|.+.-+...
T Consensus       169 ~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi--~ie~eAL~~Ia~~s~GslR~al~~  229 (507)
T PRK06645        169 QKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL--KTDIEALRIIAYKSEGSARDAVSI  229 (507)
T ss_pred             HHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            444333 234567999999999999999887743221  233467888999999998766443

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.07  E-value=3.3e-10  Score=98.78  Aligned_cols=284  Identities=18%  Similarity=0.217  Sum_probs=185.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ..+.+.++|++||||||++-++.. +...|...+++++....+++...    ...+...+.-..    .+.......+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v----~~~~ag~~gl~~----~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALV----FPTLAGALGLHV----QPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHh----HHHHHhhccccc----ccchHHHHHHHH
Confidence            358999999999999999999999 88889999999877776665332    222222222211    122334455667


Q ss_pred             hhCCceEEEEEeCCCChhh-hhhhhCCCCCCCCCceEEEEeCchhHhhhcCcccEEecCCCCHh-HHHHHHHhhhcCC--
Q 045677          111 RLRHKKVLLLIDDVADVEQ-LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFD-EAFRLFCLKAFDT--  186 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~-~~~l~~~~~~~~~~~~iiitsr~~~~~~~~~~~~~~~l~~l~~~-e~~~ll~~~~~~~--  186 (352)
                      ...+++.++++||++.... ...+...+........++.|+|....   ........+++++.. ++.++|...+...  
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~  160 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVAL  160 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhcc
Confidence            7788999999999965432 33333333323445678888886432   233456677777765 5677766554221  


Q ss_pred             -CCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHH----HHHccCC------chhHHHHHHhhhccCcHh
Q 045677          187 -YKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQ----ERLKRDP------ENKILGILQISFDGLKEA  255 (352)
Q Consensus       187 -~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~----~~~~~~~------~~~~~~~l~~~~~~L~~~  255 (352)
                       .............|.++..|.|++|+..+.....-.......-+    ..++...      .......++.++.-|+..
T Consensus       161 ~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgw  240 (414)
T COG3903         161 SFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGW  240 (414)
T ss_pred             ceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhH
Confidence             12223345678889999999999999999988775433332222    2222221      234456788899999999


Q ss_pred             hhhhhhhhccCCCCCCHHHHHHHHHhcC-----CCchhchHHHhhccceeecC---CCceehhHHHHHHHHHHHhhcCC
Q 045677          256 EKNIFLDVACFYKWENRDYVSKILDSCG-----FDPIIGISVLIEKSLLTVRE---NDRLWMHDLLQEMGQQIVRRQSP  326 (352)
Q Consensus       256 ~~~~l~~ls~~~~~~~~~~l~~~~~~~~-----~~~~~~l~~L~~~~li~~~~---~~~~~~H~lir~~~~~~~~~~~~  326 (352)
                      ++-.+.-++.|...|..+..........     +..-..+..++.++++....   .-.|+.-+-.|.|+.+.+.+...
T Consensus       241 e~~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~~e  319 (414)
T COG3903         241 ERALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRSGE  319 (414)
T ss_pred             HHHHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhhhH
Confidence            9999999999999998774433322111     12233466788899887665   22478888888888888877543

>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=99.05  E-value=5.1e-09  Score=84.91  Aligned_cols=181  Identities=24%  Similarity=0.244  Sum_probs=99.0

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-++|||.+.-++.+.-++..   .++....+.+|||||+||||||..+++.+...|.   +.+ . ...  ... .+
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~s-g-~~i--~k~-~d   91 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITS-G-PAI--EKA-GD   91 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEE-C-CC----SC-HH
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---ecc-c-hhh--hhH-HH
Confidence            44557899999999988766653   3345677999999999999999999999886652   121 1 000  011 11


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCC--------C----------
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWF--------G----------  141 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~--------~----------  141 (352)
                      +. .++..                      + +++.+|++|+++-.  ..-+.+++.+.+.        +          
T Consensus        92 l~-~il~~----------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l  147 (233)
T PF05496_consen   92 LA-AILTN----------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINL  147 (233)
T ss_dssp             HH-HHHHT-------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE-
T ss_pred             HH-HHHHh----------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccC
Confidence            11 11111                      1 23458888999642  2222222221100        1          


Q ss_pred             -CCceEEEEeCchhHhhhcC--cccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          142 -LGSMIIITTRDEHLLKLHR--VEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       142 -~~~~iiitsr~~~~~~~~~--~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                       +-..|=-|||...+....+  +.-..+|...+.+|...++.+.+..-.  .+..++.+..|+.++.|.|.--.-+.+..
T Consensus       148 ~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~--i~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  148 PPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN--IEIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             ---EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             CCceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC--CCcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence             1222335777655544432  334568999999999999987663322  23456889999999999998665555444


Q ss_pred             c
Q 045677          219 F  219 (352)
Q Consensus       219 ~  219 (352)
                      +
T Consensus       226 r  226 (233)
T PF05496_consen  226 R  226 (233)
T ss_dssp             C
T ss_pred             H
Confidence            3

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.

>PRK09087 hypothetical protein; Validated

Probab=99.04  E-value=4.3e-09  Score=87.76  Aligned_cols=145  Identities=16%  Similarity=0.092  Sum_probs=88.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      .+.++|+|++|+|||+|++.++....     ..|+. ..          .+...+...+.                    
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-----~~~i~-~~----------~~~~~~~~~~~--------------------   87 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-----ALLIH-PN----------EIGSDAANAAA--------------------   87 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-----CEEec-HH----------HcchHHHHhhh--------------------
Confidence            46789999999999999998886532     22332 10          01111111100                    


Q ss_pred             hCCceEEEEEeCCCChh-hhhhhhCCCCC-CCCCceEEEEeCch---------hHhhhcCcccEEecCCCCHhHHHHHHH
Q 045677          112 LRHKKVLLLIDDVADVE-QLRGLFGKRDW-FGLGSMIIITTRDE---------HLLKLHRVEEVYKLEALNFDEAFRLFC  180 (352)
Q Consensus       112 l~~~~~llvlDd~~~~~-~~~~l~~~~~~-~~~~~~iiitsr~~---------~~~~~~~~~~~~~l~~l~~~e~~~ll~  180 (352)
                        +  -+|+|||++... .-..++..++. ...+..+|+|++..         .+.+.......+++++++.++...+++
T Consensus        88 --~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         88 --E--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             --c--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence              0  178889995321 11223332221 13467788888743         222333455789999999999999999


Q ss_pred             hhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          181 LKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      +.+.....  ...++.++-|++.+.|....+..+...+
T Consensus       164 ~~~~~~~~--~l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        164 KLFADRQL--YVDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHHHHcCC--CCCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            87743222  2345788889999988888776554443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=1.7e-08  Score=92.67  Aligned_cols=197  Identities=17%  Similarity=0.117  Sum_probs=115.8

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..=..+||.+..++.|.+.+..+. -.+.++++|++|+||||+|+.++..+--......          .+...-..+..
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~----------~pCg~C~~C~~   78 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPTS----------DPCGTCHNCIS   78 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCC----------CCccccHHHHH
Confidence            334568999999999998887432 3467899999999999999999886522111000          00000011111


Q ss_pred             HHHHH----hcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc-hh
Q 045677           86 LLSDL----LMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD-EH  154 (352)
Q Consensus        86 ~~~~~----~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~-~~  154 (352)
                      +....    ......+...+++..+.+...    ..++.-++|||+++.  ....+.++..+.+.+..+.+|++|.+ ..
T Consensus        79 i~~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~K  158 (491)
T PRK14964         79 IKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKK  158 (491)
T ss_pred             HhccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHH
Confidence            11100    000001111122211111111    124566999999964  44577777777766677777766543 33


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +... ......+.+.+++.++....+...+.....  ...++.++.|++.++|.+..+....
T Consensus       159 l~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi--~i~~eAL~lIa~~s~GslR~alslL  218 (491)
T PRK14964        159 IPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI--EHDEESLKLIAENSSGSMRNALFLL  218 (491)
T ss_pred             HHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3332 345678999999999999998887633221  2345778899999999987554433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=5.6e-08  Score=89.57  Aligned_cols=195  Identities=18%  Similarity=0.100  Sum_probs=110.3

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc---ceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD---GSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-+.+||.+...+.|...+..+. -++.++++||+|+||||+|+.+++.+...-.   ..+..+             .
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c-------------~   75 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNEC-------------R   75 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCccc-------------H
Confidence            4444678999998888888887432 3356789999999999999999987642110   000000             0


Q ss_pred             HHHHHHHH----HhcccCCCccchhhhHHHHHhh-----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEe
Q 045677           82 LQKQLLSD----LLMLADNSIRNVYDGVNMIGSR-----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        82 l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiits  150 (352)
                      .+..+...    ................ .+.+.     ..+++-++|+|+++..  .....++..+...+..+.+|+++
T Consensus        76 ~c~~i~~g~~~dv~el~aa~~~gid~iR-~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilat  154 (472)
T PRK14962         76 ACRSIDEGTFMDVIELDAASNRGIDEIR-KIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLAT  154 (472)
T ss_pred             HHHHHhcCCCCccEEEeCcccCCHHHHH-HHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEe
Confidence            00000000    0000000111111111 11111     1245679999999643  34566666665444555555554


Q ss_pred             Cc-hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhHHHHHH
Q 045677          151 RD-EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAVDVLVS  216 (352)
Q Consensus       151 r~-~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i~~~~~  216 (352)
                      .+ ..+... ......+.+.+++.++....+...+.....  ...++.++.|++.++|.. .++..+-.
T Consensus       155 tn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi--~i~~eal~~Ia~~s~GdlR~aln~Le~  221 (472)
T PRK14962        155 TNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI--EIDREALSFIAKRASGGLRDALTMLEQ  221 (472)
T ss_pred             CChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            43 333222 334568999999999999998887632221  233567888998887664 55555443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=4.1e-08  Score=91.44  Aligned_cols=196  Identities=15%  Similarity=0.049  Sum_probs=114.5

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-..+||-+..++.|..++..+. -.+.++++|++|+||||+|+.+++.+-.......--+      ..    -..+..+
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pC------g~----C~~C~~i   82 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPC------ND----CENCREI   82 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccC------CC----CHHHHHH
Confidence            33568999999999999998532 3466789999999999999999987632110000000      00    0001111


Q ss_pred             HHH----HhcccCCCccchh---hhHHHHHhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hH
Q 045677           87 LSD----LLMLADNSIRNVY---DGVNMIGSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HL  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~~~~---~~~~~~~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~  155 (352)
                      ...    +......+...++   ++.+.+... ..++.-++|||+++.  ......++..+...+..+++|++|.+. .+
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl  162 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKL  162 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhc
Confidence            000    0000001111122   222211111 124556899999974  456777777776666777777765443 22


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ... ......+++++++.++....+...+......  ..++.+..|++.++|.+..+....
T Consensus       163 ~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~--~~~~al~~ia~~s~GslR~al~lL  221 (509)
T PRK14958        163 PVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE--FENAALDLLARAANGSVRDALSLL  221 (509)
T ss_pred             hHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHH
Confidence            222 2345678899999999888777665322211  234668889999999997665544

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.03  E-value=5e-08  Score=89.61  Aligned_cols=189  Identities=17%  Similarity=0.108  Sum_probs=107.6

Q ss_pred             CCcCcccccHHHH--HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRLE--KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~--~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      ..+.++|-.....  .+.++... .+....++|+|++|+|||+|+..+++.+.+.+ ...+.+...          .++.
T Consensus       104 FdnFv~g~~n~~a~~~~~~~~~~-~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~----------~~f~  172 (440)
T PRK14088        104 FENFVVGPGNSFAYHAALEVAKN-PGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS----------EKFL  172 (440)
T ss_pred             ccccccCCchHHHHHHHHHHHhC-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHH
Confidence            3444568666543  33333332 22245699999999999999999999876543 333333322          2333


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hh-hhhhhCCCCC-CCCCceEEEEeC-chhH--
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQ-LRGLFGKRDW-FGLGSMIIITTR-DEHL--  155 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~-~~~l~~~~~~-~~~~~~iiitsr-~~~~--  155 (352)
                      ..+...+...      ...    .+........-+|+|||++..   .. -..++..+.. ...+..+|+||. .+.-  
T Consensus       173 ~~~~~~~~~~------~~~----~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~  242 (440)
T PRK14088        173 NDLVDSMKEG------KLN----EFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLS  242 (440)
T ss_pred             HHHHHHHhcc------cHH----HHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHH
Confidence            4444333211      111    223333334558999999632   11 1233322211 123457888775 3211  


Q ss_pred             ------hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          156 ------LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       156 ------~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                            .+.......+.+.+.+.+.-..++++.+.....  ...++.++.|++.+.|+...+.-+...+
T Consensus       243 ~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~--~l~~ev~~~Ia~~~~~~~R~L~g~l~~l  309 (440)
T PRK14088        243 EFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEHG--ELPEEVLNFVAENVDDNLRRLRGAIIKL  309 (440)
T ss_pred             HHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHhccccCHHHHHHHHHHH
Confidence                  111223457889999999999999887643222  2335788999999999887776554444

>PF13173 AAA_14: AAA domain

Probab=99.01  E-value=1.1e-09  Score=83.28  Aligned_cols=119  Identities=20%  Similarity=0.187  Sum_probs=75.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      ++++|+|+.|+||||++.+++++.. ......++. ..+...        . ....             .+....+.+..
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~~~--------~-~~~~-------------~~~~~~~~~~~   58 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDPRD--------R-RLAD-------------PDLLEYFLELI   58 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCHHH--------H-HHhh-------------hhhHHHHHHhh
Confidence            6899999999999999999998866 222233332 211110        0 0000             00122233333


Q ss_pred             CCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhHhhh------cCcccEEecCCCCHhHH
Q 045677          113 RHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKL------HRVEEVYKLEALNFDEA  175 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~------~~~~~~~~l~~l~~~e~  175 (352)
                      .+++.+++||++....+|...+..+.+...+.+||+|+........      ......+++.||+..|.
T Consensus        59 ~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   59 KPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             ccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            3477899999998887777777666554567899999887654422      11234689999998874

>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=99.01  E-value=3.8e-07  Score=80.98  Aligned_cols=290  Identities=16%  Similarity=0.086  Sum_probs=155.7

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHH-HHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHH---
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLA-RVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSD---   89 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---   89 (352)
                      |...+++|..||..  ...-+|+|.||.|+||+.|+ .++...-    .. +.+.++.......+. ..++..++.+   
T Consensus         1 R~e~~~~L~~wL~e--~~~TFIvV~GPrGSGK~elV~d~~L~~r----~~-vL~IDC~~i~~ar~D-~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNE--NPNTFIVVQGPRGSGKRELVMDHVLKDR----KN-VLVIDCDQIVKARGD-AAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhc--CCCeEEEEECCCCCCccHHHHHHHHhCC----CC-EEEEEChHhhhccCh-HHHHHHHHHhcCC
Confidence            67788999999994  34479999999999999998 5555432    12 233333322221111 1222222211   


Q ss_pred             --------------------HhcccCCCccchhhhHHHHHhh---------------------------h---CCceEEE
Q 045677           90 --------------------LLMLADNSIRNVYDGVNMIGSR---------------------------L---RHKKVLL  119 (352)
Q Consensus        90 --------------------~~~~~~~~~~~~~~~~~~~~~~---------------------------l---~~~~~ll  119 (352)
                                          +.+...+-..+.+..+..+...                           +   ...+.+|
T Consensus        73 ~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVV  152 (431)
T PF10443_consen   73 FPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVV  152 (431)
T ss_pred             CcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEE
Confidence                                1111111122222222111110                           0   0136799


Q ss_pred             EEeCCCC-----------hhhhhhhhCCCCCCCCCceEEEEeCchhHhh----hc--CcccEEecCCCCHhHHHHHHHhh
Q 045677          120 LIDDVAD-----------VEQLRGLFGKRDWFGLGSMIIITTRDEHLLK----LH--RVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       120 vlDd~~~-----------~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~----~~--~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      ||||+..           ..+|...+..    .+-.+||+.|-+.....    ..  .....+.|...+.+.|..++...
T Consensus       153 VIdnF~~k~~~~~~iy~~laeWAa~Lv~----~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~  228 (431)
T PF10443_consen  153 VIDNFLHKAEENDFIYDKLAEWAASLVQ----NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQ  228 (431)
T ss_pred             EEcchhccCcccchHHHHHHHHHHHHHh----cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHH
Confidence            9999921           2345554444    34568888877653322    22  34578999999999999999888


Q ss_pred             hcCCCCC------------------chhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHHHHHccCCchhHHHH
Q 045677          183 AFDTYKP------------------LEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKILGI  244 (352)
Q Consensus       183 ~~~~~~~------------------~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (352)
                      .......                  .......++...+..||--.-|+.+++.++...  .....++.+-   +.+...+
T Consensus       229 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe--~p~~Av~~iI---~qsa~eI  303 (431)
T PF10443_consen  229 LDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGE--SPEEAVEEII---SQSASEI  303 (431)
T ss_pred             hcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCC--CHHHHHHHHH---HHHHHHH
Confidence            7432110                  013456688899999999999999999998742  1222222221   1223333


Q ss_pred             HHhhhc-------cCcH---hhhhhhhhhccCCCCCCHHHHHHHHHhcCCCchhchHHHhhccceeecC-CCc---ee-h
Q 045677          245 LQISFD-------GLKE---AEKNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRE-NDR---LW-M  309 (352)
Q Consensus       245 l~~~~~-------~L~~---~~~~~l~~ls~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~li~~~~-~~~---~~-~  309 (352)
                      ....+.       ..+.   .+..++..+|-- ..++...+..-- .-....+..|..|.+..||+... +|+   ++ =
T Consensus       304 ~k~fl~~~~~~~~~~~Wt~~QaW~LIk~Ls~~-~~v~Y~~ll~~~-lFk~~~E~~L~aLe~aeLItv~~~~G~p~~I~pG  381 (431)
T PF10443_consen  304 RKMFLLDDSDDAKSLKWTREQAWYLIKLLSKN-DEVPYNELLLSP-LFKGNDETALRALEQAELITVTTDNGRPSTIRPG  381 (431)
T ss_pred             HHHHhcCCCCcccCCCCCHHHHHHHHHHhccC-CcCcHHHHHccc-ccCCCChHHHHHHHHCCcEEEEecCCcCCeeECC
Confidence            322222       1221   223333333221 224444432210 01113566899999999999765 443   22 2


Q ss_pred             hHHHHHHHHHHHh
Q 045677          310 HDLLQEMGQQIVR  322 (352)
Q Consensus       310 H~lir~~~~~~~~  322 (352)
                      -|+.|......+.
T Consensus       382 kPvy~aAF~~L~~  394 (431)
T PF10443_consen  382 KPVYRAAFKRLVN  394 (431)
T ss_pred             ChhHHHHHHHHhh
Confidence            4566666555544

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 [].

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.00  E-value=3.2e-08  Score=89.99  Aligned_cols=204  Identities=13%  Similarity=0.130  Sum_probs=116.1

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-C-cceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-F-DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-..++|.+..++.|..++.++. -.+.++++||+|+||||+|..+++.+.-. . ....|.......+..    =..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~----c~~   86 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGE----CES   86 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCC----CHH
Confidence            3444678999999999999888432 34568899999999999999999886431 1 000000000000000    011


Q ss_pred             HHHHHHHHh----cccCCCccchhhhHHHHHhhh-----CCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEe-
Q 045677           83 QKQLLSDLL----MLADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITT-  150 (352)
Q Consensus        83 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiits-  150 (352)
                      +..+.....    ..........++..+ +.+.+     .+.+-++|+|+++..  ..++.++..+.+....+.+|+++ 
T Consensus        87 c~~~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~  165 (397)
T PRK14955         87 CRDFDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATT  165 (397)
T ss_pred             HHHHhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence            111111000    000001111222222 22222     245668999999643  45667776666555666666554 


Q ss_pred             CchhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          151 RDEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       151 r~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      +...+... ......+++.+++.++....+........  ....++.++.+++.++|.+.-+.....
T Consensus       166 ~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g--~~i~~~al~~l~~~s~g~lr~a~~~L~  230 (397)
T PRK14955        166 ELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG--ISVDADALQLIGRKAQGSMRDAQSILD  230 (397)
T ss_pred             ChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            33333322 23346789999999999988887653221  123457789999999999976655444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=1.2e-07  Score=88.52  Aligned_cols=189  Identities=14%  Similarity=0.079  Sum_probs=113.0

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc--c-eeEeeeccccccCCCcHHHHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD--G-SSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      =..+||.+..++.|...+..+ ...+.++++|++|+||||+|+.+++.+.....  . .+-.+             ..+.
T Consensus        15 f~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C-------------~sC~   80 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKC-------------ENCV   80 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCccc-------------HHHH
Confidence            356899999999999998853 23466789999999999999999987642110  0 00000             0000


Q ss_pred             HHHHH----Hhcc---cCCCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-
Q 045677           85 QLLSD----LLML---ADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-  153 (352)
Q Consensus        85 ~~~~~----~~~~---~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-  153 (352)
                      .+...    +...   .....+....+.+.+... ..+++-++|||+++  +....+.++..+...+..+.+|++|.+. 
T Consensus        81 ~i~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~  160 (546)
T PRK14957         81 AINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYH  160 (546)
T ss_pred             HHhcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChh
Confidence            00000    0000   000111122222222211 23566799999996  4455777777777666677766555433 


Q ss_pred             hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          154 HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       154 ~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      .+... ......+++.+++.++....+.+.+....  ....++.+..|++.++|.+.-+.
T Consensus       161 kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg--i~~e~~Al~~Ia~~s~GdlR~al  218 (546)
T PRK14957        161 KIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN--INSDEQSLEYIAYHAKGSLRDAL  218 (546)
T ss_pred             hhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHH
Confidence            33322 34567899999999999988887553211  12345778889999999886443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.99  E-value=4.4e-08  Score=88.15  Aligned_cols=184  Identities=11%  Similarity=0.057  Sum_probs=107.1

Q ss_pred             cCcccccHHHHHHHHHHhcCCC--------CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSN--------DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~--------~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (352)
                      ..++|.+..++.|.+.+..+..        -.+.++++||+|+|||++|..++..+--.....   ..++..        
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~---~~Cg~C--------   73 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDE---PGCGEC--------   73 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCC---CCCCCC--------
Confidence            4578999999999999985431        357789999999999999999998753221100   000000        


Q ss_pred             HHHHHHHHHHhc-----ccCCCccchhhhHHHHHhhh-----CCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEE
Q 045677           81 SLQKQLLSDLLM-----LADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIII  148 (352)
Q Consensus        81 ~l~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iii  148 (352)
                      ..+..+......     ......-.+++. ..+.+..     .+++-++|||+++..  .....++..+...+.+..+|+
T Consensus        74 ~~C~~~~~~~hpD~~~i~~~~~~i~i~~i-R~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL  152 (394)
T PRK07940         74 RACRTVLAGTHPDVRVVAPEGLSIGVDEV-RELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLL  152 (394)
T ss_pred             HHHHHHhcCCCCCEEEeccccccCCHHHH-HHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEE
Confidence            000111000000     000001111111 1122221     244568999999643  445666666665566676666


Q ss_pred             EeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhH
Q 045677          149 TTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAV  211 (352)
Q Consensus       149 tsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i  211 (352)
                      +|.+. .+.+. ......+.+++++.++..+++.+...   .    .++.+..++..++|.|..-
T Consensus       153 ~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~---~----~~~~a~~la~~s~G~~~~A  210 (394)
T PRK07940        153 CAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG---V----DPETARRAARASQGHIGRA  210 (394)
T ss_pred             EECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC---C----CHHHHHHHHHHcCCCHHHH
Confidence            65543 33333 34467899999999999998875421   1    1355778899999999644

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.98  E-value=5.6e-08  Score=85.75  Aligned_cols=176  Identities=16%  Similarity=0.206  Sum_probs=111.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-----CcceeEeeeccccccCCCcHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-----FDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      +..+|-+...+.|.+++..+ .-++...++|+.|+|||++|..+++.+...     +.....+...   ...... .+-+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~---~~~~i~-v~~i   78 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI---NKKSIG-VDDI   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc---cCCCCC-HHHH
Confidence            45789898899999998843 335778899999999999999999875221     1111111100   000011 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCchh-Hhhh-c
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDEH-LLKL-H  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~~-~  159 (352)
                      +++...+...                 -..+++-++|||+++  +....+.++..+.+.+.++.+|+++.+.. +.+. .
T Consensus        79 r~~~~~~~~~-----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~  141 (313)
T PRK05564         79 RNIIEEVNKK-----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIK  141 (313)
T ss_pred             HHHHHHHhcC-----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHH
Confidence            2222211110                 012455578888874  55678888888887788888888776543 2222 2


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      ..+..+.+.+++.++...++.+....      ..++.++.++..++|.|.-+.
T Consensus       142 SRc~~~~~~~~~~~~~~~~l~~~~~~------~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        142 SRCQIYKLNRLSKEEIEKFISYKYND------IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHHhcC------CCHHHHHHHHHHcCCCHHHHH
Confidence            44678999999999999988765421      122447788899999987554

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.98  E-value=1.4e-08  Score=96.04  Aligned_cols=197  Identities=17%  Similarity=0.116  Sum_probs=118.3

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..=..+||.+..++.|...+..+. -.+.++++|+.|+||||+|+.+++.+......   .      ..+.+. -..+..
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~---~------~~pCg~-C~~C~~   81 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI---T------ATPCGE-CDNCRE   81 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC---C------CCCCCC-CHHHHH
Confidence            334568999999999999888532 34667899999999999999999875332100   0      000000 011112


Q ss_pred             HHHH----HhcccC---CCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-h
Q 045677           86 LLSD----LLMLAD---NSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-H  154 (352)
Q Consensus        86 ~~~~----~~~~~~---~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-~  154 (352)
                      +...    +.....   ...+++.++.+.+... ..++.-++|||+++  +....+.++..+...+..+++|++|.+. .
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k  161 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence            1110    000000   1111222222222211 23566799999996  4456788887777666777766655543 3


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +... ...+..+.+++++.++....+...+.....  ...++.+..|+..++|.+.-...+.
T Consensus       162 Ll~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i--~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        162 LPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQI--PFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             cchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3322 334678999999999999998876522111  1234678889999999888555443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.97  E-value=8.2e-08  Score=90.80  Aligned_cols=199  Identities=16%  Similarity=0.130  Sum_probs=117.7

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc-c--eeEeeeccccccCCCcHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD-G--SSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~-~--~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ..-..+||.+..++.|.+.+..+. -.+.++++|+.|+||||+|+.+++.+..... .  ..-+.       ..+. -..
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~-------~cg~-c~~   91 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID-------LCGV-GEH   91 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc-------cCcc-cHH
Confidence            334568999999999999998532 3467889999999999999999987642211 0  00000       0000 011


Q ss_pred             HHHHHHHHh----c---ccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEe-C
Q 045677           83 QKQLLSDLL----M---LADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITT-R  151 (352)
Q Consensus        83 ~~~~~~~~~----~---~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiits-r  151 (352)
                      +..+.....    .   ......+++.++.+.+... ..++.-++|||+++..  ...+.++..+.+....+.+|+++ .
T Consensus        92 C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte  171 (598)
T PRK09111         92 CQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTE  171 (598)
T ss_pred             HHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            111111100    0   0001111222222222111 1234568999999643  45777777776656677776655 3


Q ss_pred             chhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          152 DEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       152 ~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ...+... ...+..+.+.+++.++....+.+.+....  ....++.++.|++.++|.+..+....
T Consensus       172 ~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~keg--i~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        172 IRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEG--VEVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3333322 23457899999999999999988763222  12334778899999999998776544

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

Probab=98.97  E-value=5.4e-08  Score=81.65  Aligned_cols=189  Identities=14%  Similarity=0.091  Sum_probs=113.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC--CCcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH--EFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-+.++|.+..++.|...+..  ...+..++|||+|+|||+-|..++..+-.  -+.+.+.-.++....... ....-
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~K  108 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVREK  108 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhhh
Confidence            44456789999999999999985  45688899999999999999999887532  244444322221111110 00000


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEE-EEeCchhHhhh-
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMII-ITTRDEHLLKL-  158 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~ii-itsr~~~~~~~-  158 (352)
                      ...+..-.......            ...-....-+||||+++.  .+.|..+.+.+...+...++| |++--..+... 
T Consensus       109 ik~fakl~~~~~~~------------~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  109 IKNFAKLTVLLKRS------------DGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             hcCHHHHhhccccc------------cCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence            00111100000000            000011224899999975  456888888877666666644 45543333222 


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .....-++.++|..++..+-|+..+...  ....+.+..+.|++.++|--.-
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E--~v~~d~~al~~I~~~S~GdLR~  226 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKE--GVDIDDDALKLIAKISDGDLRR  226 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHh--CCCCCHHHHHHHHHHcCCcHHH
Confidence            2345678899999999888888776322  2234457889999999986443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.96  E-value=2.4e-07  Score=83.72  Aligned_cols=188  Identities=13%  Similarity=0.126  Sum_probs=111.6

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC--------cceeEeeeccccccCC
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF--------DGSSFLADVRERCDKE   76 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~--------~~~~~~~~~~~~~~~~   76 (352)
                      |..=+.++|.+..++.+.+++..+ .-.+.++++|++|+|||++|..+++.+....        ...++..+  . . ..
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~--~-~-~~   87 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELD--A-A-SN   87 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEec--c-c-cC
Confidence            344467899999999999999853 2346888999999999999999988764321        11111100  0 0 00


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeC-ch
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTR-DE  153 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr-~~  153 (352)
                      .. .+....+...+...                 -..+++-++++|+++..  ..+..++..+...+..+.+|+++. ..
T Consensus        88 ~~-~~~i~~l~~~~~~~-----------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~  149 (367)
T PRK14970         88 NS-VDDIRNLIDQVRIP-----------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKH  149 (367)
T ss_pred             CC-HHHHHHHHHHHhhc-----------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcc
Confidence            00 01111111111000                 01234558999999643  346666555544344556665553 22


Q ss_pred             hHhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          154 HLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       154 ~~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .+.. .......+++++++.++...++...+.....  ...++.++.+++.++|.+..+......
T Consensus       150 kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~--~i~~~al~~l~~~~~gdlr~~~~~lek  212 (367)
T PRK14970        150 KIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI--KFEDDALHIIAQKADGALRDALSIFDR  212 (367)
T ss_pred             cCCHHHHhcceeEecCCccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            2222 2234567899999999999888876533222  123477889999999988766544443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.95  E-value=8.6e-08  Score=78.06  Aligned_cols=88  Identities=16%  Similarity=0.193  Sum_probs=62.4

Q ss_pred             CceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCC
Q 045677          114 HKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKP  189 (352)
Q Consensus       114 ~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~  189 (352)
                      +.+-++||||++..  ...+.++..+...+..+.+|+++++. .+... ......+.+.+++.++..+++.+..      
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g------  168 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG------  168 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC------
Confidence            45679999999643  44666766666556677777776643 22222 2345689999999999999998872      


Q ss_pred             chhHHHHHHHHHHHcCCCch
Q 045677          190 LEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       190 ~~~~~~~~~~i~~~~~G~Pl  209 (352)
                        ..++.+..+++.++|.|.
T Consensus       169 --i~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       169 --ISEEAAELLLALAGGSPG  186 (188)
T ss_pred             --CCHHHHHHHHHHcCCCcc
Confidence              123668899999999985

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.

>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=98.95  E-value=1e-08  Score=79.82  Aligned_cols=46  Identities=30%  Similarity=0.419  Sum_probs=38.7

Q ss_pred             ccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           12 VGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +||+..++.+...+..  ...+.+.|+|++|+|||++++.++..+...
T Consensus         1 ~~~~~~~~~i~~~~~~--~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~   46 (151)
T cd00009           1 VGQEEAIEALREALEL--PPPKNLLLYGPPGTGKTTLARAIANELFRP   46 (151)
T ss_pred             CchHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHhhcC
Confidence            4788999999998874  344789999999999999999999987543

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.95  E-value=1.1e-07  Score=90.58  Aligned_cols=202  Identities=15%  Similarity=0.151  Sum_probs=116.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |..-+.+||.+..++.|..++..+ .-.+.++++|++|+|||++|..+++.+.........-     .+   +. -..+.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~-----~c---~~-c~~c~   81 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAEG-RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGR-----PC---GT-CEMCR   81 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhC-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCC-----CC---cc-CHHHH
Confidence            334467899999999999988853 2346678999999999999999998764221100000     00   00 11222


Q ss_pred             HHHHHHhc----ccCCCccchh---hhHHHHHhh-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCc-h
Q 045677           85 QLLSDLLM----LADNSIRNVY---DGVNMIGSR-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRD-E  153 (352)
Q Consensus        85 ~~~~~~~~----~~~~~~~~~~---~~~~~~~~~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~-~  153 (352)
                      .+......    .........+   ++.+.+... ..+.+-++|||+++..  ...+.|+..+......+.+|+++.+ .
T Consensus        82 ~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~  161 (585)
T PRK14950         82 AIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVH  161 (585)
T ss_pred             HHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChh
Confidence            22211100    0000111122   222111111 1245679999999643  4567776666555556666665543 3


Q ss_pred             hHhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          154 HLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       154 ~~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      .+.. .......+.+.+++..+....+...+......  ..++.+..+++.++|.+..+......+
T Consensus       162 kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~--i~~eal~~La~~s~Gdlr~al~~LekL  225 (585)
T PRK14950        162 KVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN--LEPGALEAIARAATGSMRDAENLLQQL  225 (585)
T ss_pred             hhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            3322 22345678899999999998888765332211  234678899999999998766554443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.95  E-value=8.9e-08  Score=89.53  Aligned_cols=252  Identities=11%  Similarity=0.117  Sum_probs=135.9

Q ss_pred             CCCcCcccccHHHH--HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHH
Q 045677            6 EIPKELVGMESRLE--KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         6 ~~~~~~vGR~~~l~--~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ...+.++|-...+.  .+.............++|+|++|+|||.|+..+++.+...+ ...+.+...          ..+
T Consensus       286 TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita----------eef  355 (617)
T PRK14086        286 TFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS----------EEF  355 (617)
T ss_pred             CHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH----------HHH
Confidence            34445567766533  33444433222335589999999999999999999876532 223333321          233


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hh-hhhhhCCCCCC-CCCceEEEEeCch----
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQ-LRGLFGKRDWF-GLGSMIIITTRDE----  153 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~-~~~l~~~~~~~-~~~~~iiitsr~~----  153 (352)
                      ...+...+...      .    ...+.+.+.. .=+|+|||++..   +. -+.++..++.. ..+..|||||...    
T Consensus       356 ~~el~~al~~~------~----~~~f~~~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL  424 (617)
T PRK14086        356 TNEFINSIRDG------K----GDSFRRRYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQL  424 (617)
T ss_pred             HHHHHHHHHhc------c----HHHHHHHhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhh
Confidence            33333332110      1    1122222222 348899999532   11 13333333211 2356688888742    


Q ss_pred             -----hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC------C-
Q 045677          154 -----HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG------R-  221 (352)
Q Consensus       154 -----~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~------~-  221 (352)
                           .+.+.+.....+.|.+.+.+.-..+|++.+......  ..+++++-|++.+.++.-.|+-+...+..      + 
T Consensus       425 ~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~--l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~  502 (617)
T PRK14086        425 VTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQLN--APPEVLEFIASRISRNIRELEGALIRVTAFASLNRQP  502 (617)
T ss_pred             hhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCC
Confidence                 122333445678999999999999998877443322  34588888999988888777765554421      1 


Q ss_pred             -ChhHHHHHHHHHccC------CchhHHHH----HHhhhccCc--------HhhhhhhhhhccCCCCCCHHHHHHHHH
Q 045677          222 -PVDQWRSTQERLKRD------PENKILGI----LQISFDGLK--------EAEKNIFLDVACFYKWENRDYVSKILD  280 (352)
Q Consensus       222 -~~~~~~~~~~~~~~~------~~~~~~~~----l~~~~~~L~--------~~~~~~l~~ls~~~~~~~~~~l~~~~~  280 (352)
                       ........+..+...      ....|...    |..+.+.|.        ...|++.+|++---.+.+...+...++
T Consensus       503 itl~la~~vL~~~~~~~~~~~it~d~I~~~Va~~f~v~~~dl~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG~~Fg  580 (617)
T PRK14086        503 VDLGLTEIVLRDLIPEDSAPEITAAAIMAATADYFGLTVEDLCGTSRSRVLVTARQIAMYLCRELTDLSLPKIGQQFG  580 (617)
T ss_pred             CCHHHHHHHHHHhhccccCCcCCHHHHHHHHHHHhCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence             122333344433211      01222222    222222221        144666666666556667777777765

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.94  E-value=1.1e-07  Score=93.02  Aligned_cols=188  Identities=11%  Similarity=0.024  Sum_probs=113.6

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-C----cceeEeeeccccccCCCcHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-F----DGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      ..+||.+..++.|...+..+ .-.+.++++|+.|+||||+|+.+++.+.-. .    .|+..-               .+
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~-ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~---------------sC   78 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSG-RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECD---------------SC   78 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhC-CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccH---------------HH
Confidence            56899999999999999853 234668899999999999999999886321 1    111100               01


Q ss_pred             HHHHHH------HhcccC---CCccchhhhHHHHH-hhhCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           84 KQLLSD------LLMLAD---NSIRNVYDGVNMIG-SRLRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        84 ~~~~~~------~~~~~~---~~~~~~~~~~~~~~-~~l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      ..+...      +.....   ...+++.++.+.+. .-..++.-++|||+++.  ....+.|+..+.+....+.+|++|.
T Consensus        79 ~~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt  158 (824)
T PRK07764         79 VALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATT  158 (824)
T ss_pred             HHHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence            111100      000000   01111222111111 11234566899999974  4557777777776667777666554


Q ss_pred             -chhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          152 -DEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       152 -~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                       .+.+... ......+++..++.++...++.+.+.....  ....+.+..|++.++|.+..+...
T Consensus       159 ~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv--~id~eal~lLa~~sgGdlR~Al~e  221 (824)
T PRK07764        159 EPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV--PVEPGVLPLVIRAGGGSVRDSLSV  221 (824)
T ss_pred             ChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence             3344332 345678999999999999988876522221  123466788999999988655433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=2.9e-07  Score=86.71  Aligned_cols=193  Identities=14%  Similarity=0.073  Sum_probs=113.6

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .=..+||.+..++.|..++..+ .-.+.++++|+.|+||||+|..++..+.-..... .-. ++.        =..+..+
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-~~p-Cg~--------C~~C~~i   79 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAG-RINHAYLFSGPRGCGKTSSARILARSLNCAQGPT-ATP-CGV--------CESCVAL   79 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-CCc-ccc--------cHHHHHh
Confidence            3356899999999999999853 2346678999999999999999998754211000 000 000        0001111


Q ss_pred             HHH------HhcccC---CCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc-h
Q 045677           87 LSD------LLMLAD---NSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD-E  153 (352)
Q Consensus        87 ~~~------~~~~~~---~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~-~  153 (352)
                      ...      ......   ...+.+.++.+.+... ..++.-++|||+++  +....+.|+..+...+..+.+|++|.+ .
T Consensus        80 ~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~  159 (584)
T PRK14952         80 APNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPE  159 (584)
T ss_pred             hcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence            100      000000   0111222222222111 12456699999996  445677777777766667776665543 3


Q ss_pred             hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          154 HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       154 ~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      .+... ......+.+.+++.++..+++...+.....  ...++.+..|++.++|.+..+.
T Consensus       160 kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi--~i~~~al~~Ia~~s~GdlR~al  217 (584)
T PRK14952        160 KVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV--VVDDAVYPLVIRAGGGSPRDTL  217 (584)
T ss_pred             hhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence            33332 344678999999999999888876533221  1234677889999999886443

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

Probab=98.93  E-value=3.3e-08  Score=84.75  Aligned_cols=173  Identities=20%  Similarity=0.261  Sum_probs=101.5

Q ss_pred             cCcccccHHHH---HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRLE---KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l~---~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +++||.+..+.   .|..++.  +++.+.+.+|||+|+||||||+.++..-+.+-   ++++.....+..    ..-++.
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ie--q~~ipSmIlWGppG~GKTtlArlia~tsk~~S---yrfvelSAt~a~----t~dvR~  208 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIE--QNRIPSMILWGPPGTGKTTLARLIASTSKKHS---YRFVELSATNAK----TNDVRD  208 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHH--cCCCCceEEecCCCCchHHHHHHHHhhcCCCc---eEEEEEeccccc----hHHHHH
Confidence            34566555443   2333344  56778899999999999999999998766553   223222222222    122223


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEE--EeCchhH---hhh
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIII--TTRDEHL---LKL  158 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iii--tsr~~~~---~~~  158 (352)
                      +..+..                -...+..++++|++|+++  +..+-+.|++..   ..|..++|  ||.++..   ...
T Consensus       209 ife~aq----------------~~~~l~krkTilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aL  269 (554)
T KOG2028|consen  209 IFEQAQ----------------NEKSLTKRKTILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAAL  269 (554)
T ss_pred             HHHHHH----------------HHHhhhcceeEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHH
Confidence            322211                012235789999999994  444445555543   35555555  5555432   222


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhh---cCCC-----CCc---hhHHHHHHHHHHHcCCCch
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKA---FDTY-----KPL---EEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~---~~~~-----~~~---~~~~~~~~~i~~~~~G~Pl  209 (352)
                      ...+.++-|+.|+.++...++.+..   ....     .+.   .....+++-++..|.|-..
T Consensus       270 lSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  270 LSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             HhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            3456789999999999998887622   1111     111   2455677888888888543

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.93  E-value=1.5e-08  Score=91.22  Aligned_cols=175  Identities=14%  Similarity=0.174  Sum_probs=100.8

Q ss_pred             CCcCcccccHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC
Q 045677            7 IPKELVGMESRLEKLKFLMCTG-----------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK   75 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~-----------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (352)
                      ....+.|++.+++++.+.+...           -..++-++|+||+|+|||++|+.++......|...   . .      
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v---~-~------  189 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRV---V-G------  189 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEec---c-h------
Confidence            3456899999999998876421           12345699999999999999999998876543111   0 0      


Q ss_pred             CCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC
Q 045677           76 EGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW  139 (352)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~  139 (352)
                          ..+.    ....+.      ........+.......+.+|+||+++...                .+..++..+..
T Consensus       190 ----~~l~----~~~~g~------~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~  255 (364)
T TIGR01242       190 ----SELV----RKYIGE------GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDG  255 (364)
T ss_pred             ----HHHH----HHhhhH------HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhC
Confidence                1111    111000      00111112222223567899999986431                12233322221


Q ss_pred             --CCCCceEEEEeCchh-----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 --FGLGSMIIITTRDEH-----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 --~~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                        ...+..||.||....     +....++...+.++..+.++..+++............   -....+++.+.|..
T Consensus       256 ~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~---~~~~~la~~t~g~s  328 (364)
T TIGR01242       256 FDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED---VDLEAIAKMTEGAS  328 (364)
T ss_pred             CCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc---CCHHHHHHHcCCCC
Confidence              123566777776432     2222244567899999999999999876643322211   12567788887764

Many proteins may score above the trusted cutoff because an internal

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

Probab=98.93  E-value=5.2e-09  Score=79.93  Aligned_cols=114  Identities=18%  Similarity=0.193  Sum_probs=70.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCC----cceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEF----DGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNM  107 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (352)
                      .++++|+|++|+|||+++..+++......    ...+++..+....    ....+...++..+...... ......+.+.
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~i~~~l~~~~~~-~~~~~~l~~~   78 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR----TPRDFAQEILEALGLPLKS-RQTSDELRSL   78 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS----SHHHHHHHHHHHHT-SSSS-TS-HHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC----CHHHHHHHHHHHhCccccc-cCCHHHHHHH
Confidence            47899999999999999999998864421    2233333332222    3377888888876654444 3445555566


Q ss_pred             HHhhhCCc-eEEEEEeCCCCh---hhhhhhhCCCCCCCCCceEEEEeCc
Q 045677          108 IGSRLRHK-KVLLLIDDVADV---EQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus       108 ~~~~l~~~-~~llvlDd~~~~---~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      +.+.+... ..+||||+++..   ..++.+.....  ..+..+|+..++
T Consensus        79 ~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   79 LIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            66666544 469999999654   33444433333  567788888775

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.93  E-value=1.9e-08  Score=99.29  Aligned_cols=184  Identities=13%  Similarity=0.025  Sum_probs=104.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~   80 (352)
                      .-+++|||+.++..+.+.|..+  ...-++++|++|+|||+++..+++++....      ...+|..+++......    
T Consensus       185 ~ld~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~----  258 (852)
T TIGR03345       185 KIDPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGA----  258 (852)
T ss_pred             CCCcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhccc----
Confidence            3468899999999999988853  334567999999999999999999874431      1223322221111000    


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCChh---------hhh-hhhCCCCCCCCCceEEE
Q 045677           81 SLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADVE---------QLR-GLFGKRDWFGLGSMIII  148 (352)
Q Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~~---------~~~-~l~~~~~~~~~~~~iii  148 (352)
                                     ......+..+..+.+.+  .+.+++|+||+++...         +.. .+.+.+.  ....++|-
T Consensus       259 ---------------~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~Ig  321 (852)
T TIGR03345       259 ---------------SVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIA  321 (852)
T ss_pred             ---------------ccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEE
Confidence                           00111111112222222  2468999999995331         111 2333332  23455666


Q ss_pred             EeCchhHh-------hhcCcccEEecCCCCHhHHHHHHHhhhcC--CCCCchhHHHHHHHHHHHcCCCchhHHH
Q 045677          149 TTRDEHLL-------KLHRVEEVYKLEALNFDEAFRLFCLKAFD--TYKPLEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       149 tsr~~~~~-------~~~~~~~~~~l~~l~~~e~~~ll~~~~~~--~~~~~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                      +|..+++.       ...+.+..+.+++++.++...+++.....  ........++.+..+++.+.++.....+
T Consensus       322 aTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~L  395 (852)
T TIGR03345       322 ATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQL  395 (852)
T ss_pred             ecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccC
Confidence            66654321       12234578999999999999997543311  1111223356677777777776655444

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.93  E-value=9e-08  Score=89.43  Aligned_cols=198  Identities=15%  Similarity=0.088  Sum_probs=113.6

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-..++|++..++.|.+.+..+ ..++.++++||+|+||||+|..+++.+.. +.....       .+..    -..+
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~-------~Cg~----C~sC   79 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNN-KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGD-------CCNS----CSVC   79 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC-------CCcc----cHHH
Confidence            444467899999999999988743 23477889999999999999999988632 211000       0000    0111


Q ss_pred             HHHHHHH----hcccCCCccc---hhhhHHHHHhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEe-Cc
Q 045677           84 KQLLSDL----LMLADNSIRN---VYDGVNMIGSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITT-RD  152 (352)
Q Consensus        84 ~~~~~~~----~~~~~~~~~~---~~~~~~~~~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiits-r~  152 (352)
                      ..+....    ..........   +..+...+... ..+.+-++|||+++.  ......++..+...+..+.+|++| ..
T Consensus        80 r~i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~  159 (605)
T PRK05896         80 ESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEF  159 (605)
T ss_pred             HHHHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCCh
Confidence            1111100    0000000111   11111111111 112344799999964  345666766665555566666544 33


Q ss_pred             hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          153 EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       153 ~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ..+... ...+..+++.+++.++....+...+.....  ...++.+..+++.++|.+.-+.....
T Consensus       160 ~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi--~Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        160 QKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI--KIEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             HhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            333322 344678999999999999988876532221  12346688899999998875544433

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.93  E-value=6.7e-08  Score=88.46  Aligned_cols=187  Identities=18%  Similarity=0.158  Sum_probs=105.7

Q ss_pred             cCcccccHHHH--HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRLE--KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l~--~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +..+|....+.  .+.++..........++|+|++|+|||+|+..+++.+.+.. ...+.+...          .++...
T Consensus       111 ~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~----------~~~~~~  180 (405)
T TIGR00362       111 NFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS----------EKFTND  180 (405)
T ss_pred             ccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH----------HHHHHH
Confidence            34568776643  33333333222345789999999999999999999876543 223333221          222333


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----hhhhhhCCCCCC-CCCceEEEEeCchh------
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----QLRGLFGKRDWF-GLGSMIIITTRDEH------  154 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----~~~~l~~~~~~~-~~~~~iiitsr~~~------  154 (352)
                      +...+...      ...    .+.+.+.+ .-+|+|||++...    ..+.++..+... ..+..+|+|+....      
T Consensus       181 ~~~~~~~~------~~~----~~~~~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l  249 (405)
T TIGR00362       181 FVNALRNN------KME----EFKEKYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGL  249 (405)
T ss_pred             HHHHHHcC------CHH----HHHHHHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhh
Confidence            33332211      112    22222222 3389999995321    122333332211 23456777775321      


Q ss_pred             ---HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          155 ---LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       155 ---~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                         +.+.+.....+.+++.+.++...++++.+.....  ...++.++.|++.+.|++-.++-+...+
T Consensus       250 ~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~~--~l~~e~l~~ia~~~~~~~r~l~~~l~~l  314 (405)
T TIGR00362       250 EERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEGL--ELPDEVLEFIAKNIRSNVRELEGALNRL  314 (405)
T ss_pred             hhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence               1111222346899999999999999988744322  2345888999999999988776554443

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).

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=4.8e-07  Score=83.86  Aligned_cols=199  Identities=14%  Similarity=0.084  Sum_probs=113.0

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-C----cceeEeeeccccccCCCcHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-F----DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      .=..++|.+..++.|..++..+ .-.+.++++|++|+||||+|+.++..+... .    +++.. .++.........  +
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~-~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c-~nc~~i~~g~~~--d   89 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQ-RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC-ENCVEIDKGSFP--D   89 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc-HHHHHHhcCCCC--c
Confidence            3356899999999999999853 234667889999999999999999876421 0    11110 000000000000  0


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEe-CchhHhh
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITT-RDEHLLK  157 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiits-r~~~~~~  157 (352)
                      +.     .+........+.+..+.+.+... ..+++-++|||+++..  ...+.++..+...+....+|++| ....+..
T Consensus        90 ~~-----eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~  164 (486)
T PRK14953         90 LI-----EIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPP  164 (486)
T ss_pred             EE-----EEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHH
Confidence            00     00000000011111211111111 1245679999999643  45666666665545555555544 4333332


Q ss_pred             h-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          158 L-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       158 ~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      . ......+.+.+++.++...++...+.....  ...++.++.+++.++|++..+.....
T Consensus       165 tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi--~id~~al~~La~~s~G~lr~al~~Ld  222 (486)
T PRK14953        165 TILSRCQRFIFSKPTKEQIKEYLKRICNEEKI--EYEEKALDLLAQASEGGMRDAASLLD  222 (486)
T ss_pred             HHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            2 344568999999999999988876533221  22346788899999999876655443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=1.6e-07  Score=88.11  Aligned_cols=195  Identities=17%  Similarity=0.078  Sum_probs=112.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      .-..+||.+..++.|..++..+ .-.+.++++|++|+||||+|+.+++.+.-.....  ..       +.+. -..+..+
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~-~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~--~~-------pcg~-C~~C~~i   82 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQ-RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVT--AT-------PCGV-CSACLEI   82 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC-CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCC--CC-------CCCC-CHHHHHH
Confidence            3356899999999999998853 2346678999999999999999998863211000  00       0000 0001111


Q ss_pred             HHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hH
Q 045677           87 LSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HL  155 (352)
Q Consensus        87 ~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~  155 (352)
                      ...    +............+..+.+...    ..+++-++|||+++..  .....++..+...+..+.+|++|.+. .+
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~ki  162 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKI  162 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhC
Confidence            000    0000000011111111111111    1245669999999744  44677777776656677777666443 22


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ... ......+++++++.++....+.+.+.....  ...++.+..|++.++|.+..+...
T Consensus       163 l~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi--~~~~~al~~la~~s~Gslr~al~l  220 (527)
T PRK14969        163 PVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI--PFDATALQLLARAAAGSMRDALSL  220 (527)
T ss_pred             chhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            211 234568899999999999888776532211  123467788999999988755443

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

Probab=98.92  E-value=4.2e-08  Score=94.63  Aligned_cols=175  Identities=23%  Similarity=0.306  Sum_probs=102.3

Q ss_pred             cCcccccHHHH---HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRLE---KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l~---~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +.|+|++..+.   .|.+.+..  +..+.++|+||+|+||||+|+.+++.....|.   .+. .  ...  .. .. .+.
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~--~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~ln-a--~~~--~i-~d-ir~   95 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLN-A--VLA--GV-KD-LRA   95 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eeh-h--hhh--hh-HH-HHH
Confidence            56899999884   56666663  34467889999999999999999987654431   111 0  000  00 01 011


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEE--eCchh--Hh-
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIIT--TRDEH--LL-  156 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiit--sr~~~--~~-  156 (352)
                      .                  .......+  .++..+|+|||++.  ....+.++..+.   .+..++|+  |.+..  +. 
T Consensus        96 ~------------------i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~  154 (725)
T PRK13341         96 E------------------VDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNK  154 (725)
T ss_pred             H------------------HHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhh
Confidence            1                  11111111  24567999999964  344555555443   23344443  33321  11 


Q ss_pred             hhcCcccEEecCCCCHhHHHHHHHhhhcC-----CCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          157 KLHRVEEVYKLEALNFDEAFRLFCLKAFD-----TYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       157 ~~~~~~~~~~l~~l~~~e~~~ll~~~~~~-----~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ........+.+++++.++...++......     ........++.++.|++.+.|+..-+..+..
T Consensus       155 aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le  219 (725)
T PRK13341        155 ALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALE  219 (725)
T ss_pred             HhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            11223467899999999999999876531     0112223457788899999998766554433

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.91  E-value=5.9e-08  Score=89.90  Aligned_cols=249  Identities=14%  Similarity=0.150  Sum_probs=133.0

Q ss_pred             cCcccccHHH--HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRL--EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l--~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      +..+|.....  ..+.++....+.....++|+|++|+|||+|+..+++.+...+ ...+.+...          .++...
T Consensus       123 ~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~----------~~~~~~  192 (450)
T PRK00149        123 NFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS----------EKFTND  192 (450)
T ss_pred             ccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHH
Confidence            3456766543  344444443333346789999999999999999999976653 222333222          222333


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----hhhhhhCCCCC-CCCCceEEEEeCchh------
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----QLRGLFGKRDW-FGLGSMIIITTRDEH------  154 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----~~~~l~~~~~~-~~~~~~iiitsr~~~------  154 (352)
                      +...+...      ..    ..+.+.+. ..-+|+|||++...    ..+.++..+.. ...+..+|+|+...+      
T Consensus       193 ~~~~~~~~------~~----~~~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l  261 (450)
T PRK00149        193 FVNALRNN------TM----EEFKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGL  261 (450)
T ss_pred             HHHHHHcC------cH----HHHHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHH
Confidence            33332110      11    22233333 34489999995321    12333332221 123455777776431      


Q ss_pred             ---HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC------C--Ch
Q 045677          155 ---LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG------R--PV  223 (352)
Q Consensus       155 ---~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~------~--~~  223 (352)
                         +.+.......+.+.+.+.++..+++++.+....  ....++.++.|++.+.|....+.-+...+..      .  ..
T Consensus       262 ~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~--~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~  339 (450)
T PRK00149        262 EERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEG--IDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITL  339 (450)
T ss_pred             HHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCH
Confidence               111222335789999999999999998774322  2234578999999999998877655444321      1  22


Q ss_pred             hHHHHHHHHHcc-C----CchhHHHHHHhhh----ccCc--------HhhhhhhhhhccCCCCCCHHHHHHHHH
Q 045677          224 DQWRSTQERLKR-D----PENKILGILQISF----DGLK--------EAEKNIFLDVACFYKWENRDYVSKILD  280 (352)
Q Consensus       224 ~~~~~~~~~~~~-~----~~~~~~~~l~~~~----~~L~--------~~~~~~l~~ls~~~~~~~~~~l~~~~~  280 (352)
                      ......+..+.. .    ....+.......|    +.|.        ...|++.+|++---.+.+...+...++
T Consensus       340 ~~~~~~l~~~~~~~~~~~~~~~i~~~v~~~~~i~~~~l~~~~R~~~~~~aR~iamyl~~~~~~~s~~~Ig~~fg  413 (450)
T PRK00149        340 ELAKEALKDLLAAQKKKITIENIQKVVAEYYNIKVSDLKSKSRTRNIARPRQIAMYLAKELTDLSLPEIGRAFG  413 (450)
T ss_pred             HHHHHHHHHhhccCCCCCCHHHHHHHHHHHcCCCHHHHhCCCCCcccChHHHHHHHHHHHhcCCCHHHHHHHcC
Confidence            334444443311 1    1122222222222    2220        135667777766666667777766663

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.91  E-value=2.4e-07  Score=87.86  Aligned_cols=202  Identities=13%  Similarity=0.128  Sum_probs=114.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-..+||.+..++.|.+.+..+ .-.+.++++|++|+||||+|..+++.+.-.  .....|.......+..    -..
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~----C~s   86 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGE----CES   86 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCcc----CHH
Confidence            334467899999999999988743 234668899999999999999999876321  1001111100000000    011


Q ss_pred             HHHHHHHHh----cccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEe-C
Q 045677           83 QKQLLSDLL----MLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITT-R  151 (352)
Q Consensus        83 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiits-r  151 (352)
                      +..+.....    .........+++..+.....    ..+.+-++|||+++..  ...+.|+..+...+..+.+|+++ +
T Consensus        87 C~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~  166 (620)
T PRK14954         87 CRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTE  166 (620)
T ss_pred             HHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCC
Confidence            111111000    00000111122222222111    1245568999999643  45677777776555666665554 3


Q ss_pred             chhHhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHH
Q 045677          152 DEHLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       152 ~~~~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                      ...+.. .......+++.+++.++....+.+.+....  ....++.++.+++.++|...-+..
T Consensus       167 ~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~eg--i~I~~eal~~La~~s~Gdlr~al~  227 (620)
T PRK14954        167 LHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEG--IQIDADALQLIARKAQGSMRDAQS  227 (620)
T ss_pred             hhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhCCCHHHHHH
Confidence            333333 234567899999999999988887653211  112347788899999998775544

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

Probab=98.90  E-value=2.8e-08  Score=97.24  Aligned_cols=152  Identities=16%  Similarity=0.191  Sum_probs=89.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ++++||+.+++.+.+.|..+  ...-++++|++|+|||+++..+++++....      ...+|..++...          
T Consensus       182 ~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l----------  249 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL----------  249 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH----------
Confidence            57999999999999988853  334567999999999999999999864321      223443322111          


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCCh-----------hhhhhhhCCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVADV-----------EQLRGLFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~~-----------~~~~~l~~~~~~~~~~~~iiits  150 (352)
                          ...    .. -....+..+..+.+.+ ...+.+|+||+++..           +.-+.+.+.+.  ....++|-+|
T Consensus       250 ----~a~----~~-~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~--~g~i~~IgaT  318 (731)
T TIGR02639       250 ----LAG----TK-YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS--SGKLRCIGST  318 (731)
T ss_pred             ----hhh----cc-ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh--CCCeEEEEec
Confidence                100    00 0012222222233322 346889999999532           11222333332  2234555555


Q ss_pred             CchhHh-------hhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          151 RDEHLL-------KLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       151 r~~~~~-------~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ..+++.       ...+....+.+++++.++...+++...
T Consensus       319 t~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       319 TYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             CHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            443221       112345689999999999999998543

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.87  E-value=5.8e-07  Score=85.86  Aligned_cols=197  Identities=12%  Similarity=0.113  Sum_probs=114.6

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |..-..++|.+..++.|...+..+ .-.+.++++||+|+|||++|+.++..+-.......+-. +           ..+.
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~p-C-----------~~C~   80 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSN-KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEP-C-----------QECI   80 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCc-h-----------hHHH
Confidence            334456899999999999999853 23577889999999999999999987532111000000 0           0000


Q ss_pred             HHHHH---HhcccCCC---ccchhhhHHHHHhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEe-Cchh
Q 045677           85 QLLSD---LLMLADNS---IRNVYDGVNMIGSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITT-RDEH  154 (352)
Q Consensus        85 ~~~~~---~~~~~~~~---~~~~~~~~~~~~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiits-r~~~  154 (352)
                      .....   ........   ...+..+.+.+... ..++.-++|||+++.  ...+..++..+...+..+.+|++| ....
T Consensus        81 ~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~K  160 (725)
T PRK07133         81 ENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHK  160 (725)
T ss_pred             HhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhh
Confidence            00000   00000000   11122222222111 124566999999964  456777777776656666655544 4444


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      +... ...+..+++.+++.++....+...+.....  ....+.+..++..++|.+.-+.....
T Consensus       161 Ll~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI--~id~eAl~~LA~lS~GslR~AlslLe  221 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDEIVSRLEFILEKENI--SYEKNALKLIAKLSSGSLRDALSIAE  221 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            4332 345678999999999999888875422111  12346688899999998865544433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.86  E-value=5.9e-07  Score=83.42  Aligned_cols=195  Identities=15%  Similarity=0.103  Sum_probs=116.2

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc-CCCcc--eeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS-HEFDG--SSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-+.+||-+...+.|...+..+ .-.+..+++|++|+|||++|..+++.+- .....  .+..+             .
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~g-rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C-------------~   75 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNN-RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTC-------------I   75 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCccc-------------H
Confidence            334466899999999999999853 2456778999999999999999998753 21110  00000             0


Q ss_pred             HHHHHHHHH----hcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           82 LQKQLLSDL----LMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        82 l~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+..+....    ............+..+.+...    ..++.-++|||+++.  .+....++..+...+..+++|+++.
T Consensus        76 ~C~~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~tt  155 (535)
T PRK08451         76 QCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATT  155 (535)
T ss_pred             HHHHHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEEC
Confidence            000000000    000000001122222222110    113556999999964  4456777777766567777777765


Q ss_pred             ch-hHhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          152 DE-HLLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       152 ~~-~~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +. .+.+ .......+++.+++.++....+...+.....  ...++.+..|++.++|.+.-+....
T Consensus       156 d~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi--~i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        156 DPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV--SYEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             ChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            53 2221 2234678999999999999998876532221  1234778899999999997666554

>PRK06620 hypothetical protein; Validated

Probab=98.85  E-value=6.6e-08  Score=79.96  Aligned_cols=168  Identities=13%  Similarity=0.071  Sum_probs=95.5

Q ss_pred             CCCCCcCcccccHH--HHHHHHHHhcCCCC--eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677            4 ELEIPKELVGMESR--LEKLKFLMCTGSND--VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         4 ~~~~~~~~vGR~~~--l~~l~~~l~~~~~~--~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      .+...+.++|....  ...+.++-......  .+.+.|+|++|+|||+|++.+++....     .+...      .    
T Consensus        12 ~~tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~~------~----   76 (214)
T PRK06620         12 KYHPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIKD------I----   76 (214)
T ss_pred             CCCchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccCC-----EEcch------h----
Confidence            33445566777443  23444444321111  266899999999999999987765431     11110      0    


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhh--hhhhhCCCCCCCCCceEEEEeCchhH--
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ--LRGLFGKRDWFGLGSMIIITTRDEHL--  155 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~--~~~l~~~~~~~~~~~~iiitsr~~~~--  155 (352)
                       ....                         +.. ...-+++|||++..++  +-.++..+.  ..+..+|+|++..+.  
T Consensus        77 -~~~~-------------------------~~~-~~~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l  127 (214)
T PRK06620         77 -FFNE-------------------------EIL-EKYNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNF  127 (214)
T ss_pred             -hhch-------------------------hHH-hcCCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCcccc
Confidence             0000                         000 1224789999964332  222222222  345678888874422  


Q ss_pred             -----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          156 -----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       156 -----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                           .+.......+.+++++.++...++.+.+.....  ...+++++-|++.+.|.--.+..+...
T Consensus       128 ~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l--~l~~ev~~~L~~~~~~d~r~l~~~l~~  192 (214)
T PRK06620        128 TLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSV--TISRQIIDFLLVNLPREYSKIIEILEN  192 (214)
T ss_pred             chHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHccCCHHHHHHHHHH
Confidence                 122233457999999999988888776632211  233577888888888877666554443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=7.3e-07  Score=83.88  Aligned_cols=196  Identities=13%  Similarity=0.095  Sum_probs=113.0

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHHHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      -..++|.+..++.|.+.+..+ .-.+.++++|++|+|||++|..+++.+.... .... -++.          -..+..+
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~-pCg~----------C~sC~~i   82 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGE-PCNT----------CEQCRKV   82 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCC-CCcc----------cHHHHHH
Confidence            356799998888999888843 2257888999999999999999998763211 0000 0000          0111111


Q ss_pred             HHHH----hccc---CCCccchhhhHHHHHh-hhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCc-hhH
Q 045677           87 LSDL----LMLA---DNSIRNVYDGVNMIGS-RLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRD-EHL  155 (352)
Q Consensus        87 ~~~~----~~~~---~~~~~~~~~~~~~~~~-~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~-~~~  155 (352)
                      ....    ....   ....+.+..+.+.+.. -..++.-+||||+++..  .....|+..+........+|++|.+ ..+
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kl  162 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKF  162 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhh
Confidence            1100    0000   0001111111111111 12345679999999643  5567777766554556666665544 333


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhHHHHHHh
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAVDVLVSF  217 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i~~~~~~  217 (352)
                      ... ......+++++++.++....+...+.....  ...++.++.|++.++|.+ .++.++-+.
T Consensus       163 l~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi--~id~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        163 PVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV--DYDPAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             hHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            322 234568899999999999888876532221  133477888999999976 455555443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.84  E-value=1.3e-07  Score=85.56  Aligned_cols=174  Identities=14%  Similarity=0.176  Sum_probs=98.4

Q ss_pred             CcCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            8 PKELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .+.+.|++.+++++.+.+..           +-..++-++++||+|+|||++|+.+++.....|    +....       
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~----i~v~~-------  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF----IRVVG-------  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCE----EEeeh-------
Confidence            34578999999999886632           113456699999999999999999998866432    11111       


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh------------h----hhhhhCCCCC-
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE------------Q----LRGLFGKRDW-  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~------------~----~~~l~~~~~~-  139 (352)
                         ..    +.....+.      ........+.......+.+|+||+++...            .    +..++..+.. 
T Consensus       199 ---~~----l~~~~~g~------~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~  265 (389)
T PRK03992        199 ---SE----LVQKFIGE------GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF  265 (389)
T ss_pred             ---HH----HhHhhccc------hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhcccc
Confidence               11    11111100      00111112222224567899999996431            1    2223322221 


Q ss_pred             -CCCCceEEEEeCchhH-----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 -FGLGSMIIITTRDEHL-----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 -~~~~~~iiitsr~~~~-----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                       ...+..||.||.....     ....++...+.+++.+.++..++++...........   .....++..+.|+-
T Consensus       266 ~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~---~~~~~la~~t~g~s  337 (389)
T PRK03992        266 DPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD---VDLEELAELTEGAS  337 (389)
T ss_pred             CCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc---CCHHHHHHHcCCCC
Confidence             1235566666654321     111245567999999999999999876633222211   22566777777643

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.83  E-value=1.4e-06  Score=82.51  Aligned_cols=196  Identities=13%  Similarity=0.092  Sum_probs=114.3

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-..++|.+..++.|.+++..+. -.+.++++|+.|+|||++|+.++..+.. +.....-+          +. -..+
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC----------~~-C~~C   79 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPC----------NE-CEIC   79 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC----------Cc-cHHH
Confidence            3444678999999999999998543 3577888999999999999999987532 11100000          00 0111


Q ss_pred             HHHHHHH----hcccC---CCccchhhhHHHHHhh-hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeC-c
Q 045677           84 KQLLSDL----LMLAD---NSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTR-D  152 (352)
Q Consensus        84 ~~~~~~~----~~~~~---~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr-~  152 (352)
                      ..+....    .....   ...+.+.++.+.+... ..++.-++|||+++..  .....++..+...+..+.+|++|. .
T Consensus        80 ~~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~  159 (559)
T PRK05563         80 KAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEP  159 (559)
T ss_pred             HHHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCCh
Confidence            1111100    00000   0011111222211111 1345679999999744  557777777765556666665543 3


Q ss_pred             hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          153 EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       153 ~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ..+... ......+.+.+++.++....+...+.....  ...++.+..++..++|.+......
T Consensus       160 ~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi--~i~~~al~~ia~~s~G~~R~al~~  220 (559)
T PRK05563        160 HKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGI--EYEDEALRLIARAAEGGMRDALSI  220 (559)
T ss_pred             hhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            333322 234567899999999999888876532221  123467888999999988765443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.83  E-value=1.3e-06  Score=82.37  Aligned_cols=197  Identities=14%  Similarity=0.078  Sum_probs=116.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-C----cceeEeeeccccccCCCcH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-F----DGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~   79 (352)
                      |..=..++|-+..++.|..++.++ .-.+.++++|+.|+|||++|+.+++.+-.. .    .++... .+......... 
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~-~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~-~C~~i~~~~~~-   88 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESN-KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECS-SCKSIDNDNSL-   88 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccch-HHHHHHcCCCC-
Confidence            333457899999999999999853 245678899999999999999999886321 1    111100 00000000000 


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHH---Hhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc-
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMI---GSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD-  152 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~-  152 (352)
                       ++        ............+..+..   ... ..+++-++|||+++.  ...++.++..+...+..+.+|+++.+ 
T Consensus        89 -dv--------~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~  159 (563)
T PRK06647         89 -DV--------IEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEV  159 (563)
T ss_pred             -Ce--------EEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCCh
Confidence             00        000000111122222211   111 134566899999964  44577787777766667777666543 


Q ss_pred             hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          153 EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       153 ~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      ..+... ......+++.+++.++....+.+.+.....  ...++.+..|++.++|.+..+....
T Consensus       160 ~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi--~id~eAl~lLa~~s~GdlR~alslL  221 (563)
T PRK06647        160 HKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI--KYEDEALKWIAYKSTGSVRDAYTLF  221 (563)
T ss_pred             HHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            333322 234567899999999999988876633222  2345778889999999987665443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.83  E-value=3.8e-07  Score=83.65  Aligned_cols=183  Identities=15%  Similarity=0.107  Sum_probs=101.8

Q ss_pred             CCCcCcccccHHHH--HHHHHHhcC----CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677            6 EIPKELVGMESRLE--KLKFLMCTG----SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         6 ~~~~~~vGR~~~l~--~l~~~l~~~----~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      ...+..+|....+.  .+.++....    +.....++|+|++|+|||+|++.+++.+........++. .          
T Consensus       109 tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~-~----------  177 (445)
T PRK12422        109 TFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR-S----------  177 (445)
T ss_pred             cccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee-H----------
Confidence            33445568777764  444443311    122467889999999999999999998765433334433 1          


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----hhhhhhCCCCC-CCCCceEEEEeCch-
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----QLRGLFGKRDW-FGLGSMIIITTRDE-  153 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----~~~~l~~~~~~-~~~~~~iiitsr~~-  153 (352)
                      ..+...+...+...      .    ...++.... ..-+|+|||+....    ..++++..++. ...+..||+||... 
T Consensus       178 ~~f~~~~~~~l~~~------~----~~~f~~~~~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p  246 (445)
T PRK12422        178 ELFTEHLVSAIRSG------E----MQRFRQFYR-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAP  246 (445)
T ss_pred             HHHHHHHHHHHhcc------h----HHHHHHHcc-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCH
Confidence            22223333332210      1    122333322 34488999984321    12233322211 12355788877532 


Q ss_pred             h--------HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          154 H--------LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       154 ~--------~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      .        +.+.+.....+.+.+++.++...++++.+....  ....++.++-|+..+.++--.+.
T Consensus       247 ~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~--~~l~~evl~~la~~~~~dir~L~  311 (445)
T PRK12422        247 QDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS--IRIEETALDFLIEALSSNVKSLL  311 (445)
T ss_pred             HHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHH
Confidence            1        112122346889999999999999988764332  12335777778887777764443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.83  E-value=9.9e-07  Score=81.26  Aligned_cols=200  Identities=15%  Similarity=0.128  Sum_probs=113.2

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCc
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGS   78 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~   78 (352)
                      |..-+.++|.+..++.|.+++..+ .-.+.++++|++|+|||++|..+++.+...-      .++... ++.........
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~-~C~~i~~~~~~   90 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRFN-RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCA-SCKEISSGTSL   90 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccH-HHHHHhcCCCC
Confidence            334467899999999999999843 2346788999999999999999998763220      010000 00000000000


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHh-hhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCc-hh
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGS-RLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRD-EH  154 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~-~~  154 (352)
                        +    +. .+.+......+.+.+..+.+.. -..+.+-++|||+++..  ...+.++..+......+.+|+++.+ ..
T Consensus        91 --d----~~-~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~k  163 (451)
T PRK06305         91 --D----VL-EIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHK  163 (451)
T ss_pred             --c----eE-EeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHh
Confidence              0    00 0000000001111111111111 11245678999999643  4456666666655566666666533 33


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +... ......+++.+++.++....+...+....  ....++.+..++..++|.+.-+....
T Consensus       164 l~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg--~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        164 IPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG--IETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             cchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3222 33466899999999999998887653211  11334778899999999886554443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.81  E-value=7.7e-08  Score=95.34  Aligned_cols=150  Identities=15%  Similarity=0.139  Sum_probs=87.9

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC------CcceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE------FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ++.+||+.+++.+.+.|...  ...-++++|++|+|||++|..+++.+...      ....+|..++...          
T Consensus       179 ~~~igr~~ei~~~~~~L~r~--~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l----------  246 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRR--TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLL----------  246 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccc--ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHH----------
Confidence            56899999999999999853  33456799999999999999999886432      1233443322111          


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCChh---------hhhhhh-CCCCCCCCCceEEEEeC
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADVE---------QLRGLF-GKRDWFGLGSMIIITTR  151 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~~---------~~~~l~-~~~~~~~~~~~iiitsr  151 (352)
                          +    .+.. -....++.+..+.+. ....+++|+||+++..-         +...++ +.+.  ....++|.+|.
T Consensus       247 ----~----ag~~-~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt  315 (821)
T CHL00095        247 ----L----AGTK-YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATT  315 (821)
T ss_pred             ----h----ccCC-CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCC
Confidence                1    0000 011222222222222 23568999999995221         122222 2222  23456666666


Q ss_pred             chhHhh-------hcCcccEEecCCCCHhHHHHHHHh
Q 045677          152 DEHLLK-------LHRVEEVYKLEALNFDEAFRLFCL  181 (352)
Q Consensus       152 ~~~~~~-------~~~~~~~~~l~~l~~~e~~~ll~~  181 (352)
                      .+++..       .......+.+...+.++...++..
T Consensus       316 ~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        316 LDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            554321       123456788899999988887764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.80  E-value=1.5e-06  Score=82.88  Aligned_cols=196  Identities=16%  Similarity=0.139  Sum_probs=113.5

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      .=+.++|.+..++.|..++..+ .-.+.++++|+.|+|||++|..++..+.-. .....--++   .+       ..+..
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg---~C-------~sC~~   83 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATN-KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACN---EC-------ESCVA   83 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCC---cc-------hHHHH
Confidence            3356899999999999999853 235678899999999999999988875311 100000000   00       00000


Q ss_pred             HHHH----HhcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEe-Cchh
Q 045677           86 LLSD----LLMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITT-RDEH  154 (352)
Q Consensus        86 ~~~~----~~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiits-r~~~  154 (352)
                      +...    +......+.....+....+...    ..+.+-++|||+++.  ....+.|+..+...+..+.+|++| ....
T Consensus        84 ~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~k  163 (614)
T PRK14971         84 FNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHK  163 (614)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchh
Confidence            0000    0000000111112222222111    123455889999964  455777777776656667766554 4344


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +... ......+++.+++.++....+...+.....  ...++.++.|++.++|...-+....
T Consensus       164 Il~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi--~i~~~al~~La~~s~gdlr~al~~L  223 (614)
T PRK14971        164 ILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI--TAEPEALNVIAQKADGGMRDALSIF  223 (614)
T ss_pred             chHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4333 345678999999999999988876532221  1234678889999999887665443

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=7.1e-07  Score=85.07  Aligned_cols=198  Identities=16%  Similarity=0.137  Sum_probs=113.9

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      -..++|.+..++.|..++..+. -.+.++++|++|+|||++|..+++.+........-..    .+..    -..+..+.
T Consensus        15 f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~----~Cg~----C~~C~~i~   85 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPE----PCGK----CELCRAIA   85 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCC----CCcc----cHHHHHHh
Confidence            3568999999999999988532 3467889999999999999999988643210000000    0000    11222222


Q ss_pred             HHHhc----ccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hHh
Q 045677           88 SDLLM----LADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HLL  156 (352)
Q Consensus        88 ~~~~~----~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~~  156 (352)
                      .....    ........++...+.+...    ..++.-++|||+++..  +....++..+......+.+|++|.+. .+.
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~ll  165 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVL  165 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhh
Confidence            11100    0000111122222222111    1245569999999743  45777777766555666666555433 333


Q ss_pred             hh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          157 KL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       157 ~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      .. ......+.+.+++.++....+...+.....  ...++.+..+++.++|.+..+.....
T Consensus       166 pTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi--~is~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        166 PTIISRCQRFDFRRIPLEAMVQHLSEIAEKESI--EIEPEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            22 334667889999999988877765532111  12236688999999999876654444

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.77  E-value=1.2e-07  Score=81.29  Aligned_cols=153  Identities=17%  Similarity=0.180  Sum_probs=80.9

Q ss_pred             CcccccHHHHHHHH---HHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC--cceeEeeecccccc
Q 045677           10 ELVGMESRLEKLKF---LMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF--DGSSFLADVRERCD   74 (352)
Q Consensus        10 ~~vGR~~~l~~l~~---~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~--~~~~~~~~~~~~~~   74 (352)
                      .++|.+...+++.+   +...          ..+....++++||+|+|||++|+.++..+....  ....++. +..   
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~-~~~---   82 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIE-VER---   82 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEE-ecH---
Confidence            46777766655543   3211          122346688999999999999999988753221  1111111 000   


Q ss_pred             CCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------hhhhhhhCCCCCCCCCc
Q 045677           75 KEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------EQLRGLFGKRDWFGLGS  144 (352)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------~~~~~l~~~~~~~~~~~  144 (352)
                           .+    +.....+..      .......+...   ..-+|+||+++..          +.++.++..+.......
T Consensus        83 -----~~----l~~~~~g~~------~~~~~~~~~~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~  144 (261)
T TIGR02881        83 -----AD----LVGEYIGHT------AQKTREVIKKA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEF  144 (261)
T ss_pred             -----HH----hhhhhccch------HHHHHHHHHhc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCE
Confidence                 11    111111000      01111122211   2348999999642          23455555544334444


Q ss_pred             eEEEEeCchhHh-------hh-cCcccEEecCCCCHhHHHHHHHhhhc
Q 045677          145 MIIITTRDEHLL-------KL-HRVEEVYKLEALNFDEAFRLFCLKAF  184 (352)
Q Consensus       145 ~iiitsr~~~~~-------~~-~~~~~~~~l~~l~~~e~~~ll~~~~~  184 (352)
                      .+|+++......       .. .+....+.+++++.++..+++.+.+.
T Consensus       145 ~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       145 VLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             EEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            566665433221       11 12335689999999999999987763

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.75  E-value=2e-07  Score=92.66  Aligned_cols=152  Identities=12%  Similarity=0.104  Sum_probs=88.2

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      -+++|||+.+++.+.+.|..+  ....++++|++|+|||+++..+++++....      ...+|..++..          
T Consensus       172 ~~~~igr~~ei~~~~~~l~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~----------  239 (852)
T TIGR03346       172 LDPVIGRDEEIRRTIQVLSRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA----------  239 (852)
T ss_pred             CCcCCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH----------
Confidence            357999999999999999853  335566899999999999999998865431      12233322111          


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCChh----------hhhhhhCCCCCCCCCceEEEE
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADVE----------QLRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~~----------~~~~l~~~~~~~~~~~~iiit  149 (352)
                          +..    +.. -....+..+..+...+  .+.+++|+||+++...          ..+.+.+.+.  ....++|-+
T Consensus       240 ----l~a----~~~-~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~Iga  308 (852)
T TIGR03346       240 ----LIA----GAK-YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGA  308 (852)
T ss_pred             ----Hhh----cch-hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEe
Confidence                100    000 0011222222222222  2468999999996332          1222222222  234455555


Q ss_pred             eCchhHhh-------hcCcccEEecCCCCHhHHHHHHHhh
Q 045677          150 TRDEHLLK-------LHRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       150 sr~~~~~~-------~~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      |..+++..       ..+....+.++..+.++...++...
T Consensus       309 Tt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       309 TTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             CcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            55443311       1234567889999999999988754

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=1.7e-06  Score=82.28  Aligned_cols=190  Identities=12%  Similarity=0.055  Sum_probs=111.6

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC-CC----cceeEeeeccccccCCCcH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH-EF----DGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~-~~----~~~~~~~~~~~~~~~~~~~   79 (352)
                      |..-..+||.+...+.|...+..+ .-.+.++++|+.|+||||+|..++..+.. +.    .++..              
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c--------------   76 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTG-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVC--------------   76 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCcc--------------
Confidence            334467899999999999998853 23467789999999999999999987532 11    01110              


Q ss_pred             HHHHHHHHHH-------HhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEE
Q 045677           80 ISLQKQLLSD-------LLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        80 ~~l~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiit  149 (352)
                       ..+..+...       +........+++.++...+... ..++.-++|||+++.  ....+.|+..+.+....+.+|++
T Consensus        77 -~~c~~i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~  155 (576)
T PRK14965         77 -PPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFA  155 (576)
T ss_pred             -HHHHHHhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEE
Confidence             011111000       0000000111122222211111 123455899999964  34567777777665667776655


Q ss_pred             eC-chhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          150 TR-DEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       150 sr-~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      |. ...+... ......+++.+++.++....+...+.....  ...++.+..+++.++|....+.
T Consensus       156 t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi--~i~~~al~~la~~a~G~lr~al  218 (576)
T PRK14965        156 TTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI--SISDAALALVARKGDGSMRDSL  218 (576)
T ss_pred             eCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence            54 3444332 344667889999999998888775532221  1234678889999999875443

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

Probab=98.73  E-value=8.1e-07  Score=73.00  Aligned_cols=182  Identities=16%  Similarity=0.146  Sum_probs=105.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCcc-chhhhHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIR-NVYDGVNMI  108 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~  108 (352)
                      .+..++.|+|+-|+|||.+.+.+...+..+-...+.+      ..+......+...+...+...+..... ..+.....+
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i------~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L  122 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVI------DKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDREL  122 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEe------cCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHH
Confidence            4457999999999999999995555554332222222      222222256666666665552222211 222222333


Q ss_pred             Hhhh-CCc-eEEEEEeCCCCh--hh---hhhhhCCCCCCCCCceEEEEeCchh--------Hhhhc-CcccEEecCCCCH
Q 045677          109 GSRL-RHK-KVLLLIDDVADV--EQ---LRGLFGKRDWFGLGSMIIITTRDEH--------LLKLH-RVEEVYKLEALNF  172 (352)
Q Consensus       109 ~~~l-~~~-~~llvlDd~~~~--~~---~~~l~~~~~~~~~~~~iiitsr~~~--------~~~~~-~~~~~~~l~~l~~  172 (352)
                      .+.. .++ ++++++|+.++.  +.   ++-+...-...+....|+.....+-        ..... +..-.|.++|++.
T Consensus       123 ~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~  202 (269)
T COG3267         123 AALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTE  202 (269)
T ss_pred             HHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcCh
Confidence            3332 344 499999999532  22   3333333333333345665544221        11111 1222389999999


Q ss_pred             hHHHHHHHhhhcCCCCC-chhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          173 DEAFRLFCLKAFDTYKP-LEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       173 ~e~~~ll~~~~~~~~~~-~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      ++...+++.+..+...+ +-..++.+..|+..++|.|..|..++..
T Consensus       203 ~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         203 AETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            99999998876544322 3345678899999999999999887654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.73  E-value=2e-06  Score=70.98  Aligned_cols=122  Identities=17%  Similarity=0.228  Sum_probs=73.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      +..-+.++|-+.+.+.|.+....  .+.+..-|++||+.|+|||++++.+........-..+-+.               
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~---------------   87 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVS---------------   87 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEEC---------------
Confidence            33446789999999998775553  2345677899999999999999999988766542222221               


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCC---CChh---hhhhhhC-CCCCCCCCceEEEEeCchhH
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDV---ADVE---QLRGLFG-KRDWFGLGSMIIITTRDEHL  155 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~---~~~~---~~~~l~~-~~~~~~~~~~iiitsr~~~~  155 (352)
                                  ......+..+.+.++  -...+++|++||+   ....   .++.++. .+...+.+..|..||....+
T Consensus        88 ------------k~~L~~l~~l~~~l~--~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHL  153 (249)
T PF05673_consen   88 ------------KEDLGDLPELLDLLR--DRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHL  153 (249)
T ss_pred             ------------HHHhccHHHHHHHHh--cCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhc
Confidence                        001111122222222  1357899999998   2223   3444442 23344556666667654444

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.69  E-value=5.6e-07  Score=79.72  Aligned_cols=150  Identities=17%  Similarity=0.196  Sum_probs=85.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |..-+.++|.+...+.+..++..+ .....++++|++|+|||+++..+++.....+   ..+ +...    ..  .....
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~---~~i-~~~~----~~--~~~i~   85 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEV---LFV-NGSD----CR--IDFVR   85 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccc---eEe-ccCc----cc--HHHHH
Confidence            344467899999999999999853 2356777899999999999999988764321   112 1111    01  11111


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hhhhhhhCCCCCCCCCceEEEEeCchh-Hhh-hc
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQLRGLFGKRDWFGLGSMIIITTRDEH-LLK-LH  159 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~-~~  159 (352)
                      ..+..+.....                ..+.+-++|||+++..   +....+...+.....++++|+|+.... +.+ ..
T Consensus        86 ~~l~~~~~~~~----------------~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~  149 (316)
T PHA02544         86 NRLTRFASTVS----------------LTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLR  149 (316)
T ss_pred             HHHHHHHHhhc----------------ccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHH
Confidence            11111110000                1134558999999644   222233332333356778888876432 111 12


Q ss_pred             CcccEEecCCCCHhHHHHHHHh
Q 045677          160 RVEEVYKLEALNFDEAFRLFCL  181 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~  181 (352)
                      .....+.++..+.++..+++..
T Consensus       150 sR~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        150 SRCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             hhceEEEeCCCCHHHHHHHHHH
Confidence            3345677777888877766543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.68  E-value=2.5e-07  Score=91.78  Aligned_cols=49  Identities=12%  Similarity=0.209  Sum_probs=41.5

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      -++++||+.+++.+.+.|...  ....++++|++|+|||+++..++..+..
T Consensus       177 l~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            357999999999999999853  3356779999999999999999998754

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.66  E-value=1.7e-06  Score=76.22  Aligned_cols=93  Identities=11%  Similarity=0.072  Sum_probs=64.3

Q ss_pred             ceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCc
Q 045677          115 KKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPL  190 (352)
Q Consensus       115 ~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~  190 (352)
                      ..-++|||+++  +.+....++..+.+.+.++.+|++|.+. .+.+. ......+.+.+++.+++.+.+.+... . .  
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~-~-~--  181 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALP-E-S--  181 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcc-c-C--
Confidence            34456789997  4566788888877767778877777654 33333 34567899999999999999987531 1 1  


Q ss_pred             hhHHHHHHHHHHHcCCCchhHHH
Q 045677          191 EEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       191 ~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                        .++....+...++|.|.....
T Consensus       182 --~~~~~~~~l~la~Gsp~~A~~  202 (328)
T PRK05707        182 --DERERIELLTLAGGSPLRALQ  202 (328)
T ss_pred             --ChHHHHHHHHHcCCCHHHHHH
Confidence              124456678899999975443

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.66  E-value=7.4e-07  Score=79.45  Aligned_cols=184  Identities=17%  Similarity=0.134  Sum_probs=104.3

Q ss_pred             CCcCcccccHHHHH-H-HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            7 IPKELVGMESRLEK-L-KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         7 ~~~~~vGR~~~l~~-l-~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      ..+..+|-...+.. + ..+-...+.....++|||+.|.|||.|++.+.+...+......++.    .+.     .....
T Consensus        86 FdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y----~~s-----e~f~~  156 (408)
T COG0593          86 FDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVY----LTS-----EDFTN  156 (408)
T ss_pred             hhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEe----ccH-----HHHHH
Confidence            33445677666642 2 2233333335788999999999999999999999777665433332    111     22333


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----hhhhhhhCCCCCC-CCCceEEEEeCch------
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----EQLRGLFGKRDWF-GLGSMIIITTRDE------  153 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----~~~~~l~~~~~~~-~~~~~iiitsr~~------  153 (352)
                      .+...+..          ...+.+++..  .-=+++|||++-.    ..-++++..++.. ..+.+||+|++..      
T Consensus       157 ~~v~a~~~----------~~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~  224 (408)
T COG0593         157 DFVKALRD----------NEMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNG  224 (408)
T ss_pred             HHHHHHHh----------hhHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence            33333222          1122344443  2238999999422    1133444433321 2344899998643      


Q ss_pred             ---hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHH
Q 045677          154 ---HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       154 ---~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                         .+.+.....-.+.+.+.+.+....++.+.+......  ..+++..-++.....+-.-++.
T Consensus       225 ~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~--i~~ev~~~la~~~~~nvReLeg  285 (408)
T COG0593         225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIE--IPDEVLEFLAKRLDRNVRELEG  285 (408)
T ss_pred             ccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHhhccHHHHHH
Confidence               233334556789999999999999998865332221  1235555565555555444443

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

Probab=98.64  E-value=1e-07  Score=92.52  Aligned_cols=151  Identities=17%  Similarity=0.189  Sum_probs=86.5

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ++++||+.+++++.+.|...  ...-++++|++|+|||++|..+++.+....      ...+|..+.             
T Consensus       186 ~~liGR~~ei~~~i~iL~r~--~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~-------------  250 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI-------------  250 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccH-------------
Confidence            46899999999999998863  234567899999999999999998753321      122222111             


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCCh----------hhhhh-hhCCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVADV----------EQLRG-LFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~~----------~~~~~-l~~~~~~~~~~~~iiits  150 (352)
                       ..++.    +. .-....+.....+...+ ...+.+|+||+++..          .+... +.+.+.  ....++|-+|
T Consensus       251 -~~lla----G~-~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgAT  322 (758)
T PRK11034        251 -GSLLA----GT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  322 (758)
T ss_pred             -HHHhc----cc-chhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecC
Confidence             11110    00 00112222222222222 346789999999532          12222 222222  2344555555


Q ss_pred             CchhHh-------hhcCcccEEecCCCCHhHHHHHHHhh
Q 045677          151 RDEHLL-------KLHRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       151 r~~~~~-------~~~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      ..+++.       ...+....+.+++.+.++...+++..
T Consensus       323 t~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        323 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             ChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            544321       11234568999999999999998854

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=4.5e-06  Score=73.14  Aligned_cols=193  Identities=13%  Similarity=0.082  Sum_probs=110.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCC--------------CcceeEeeeccccc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHE--------------FDGSSFLADVRERC   73 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~--------------~~~~~~~~~~~~~~   73 (352)
                      ..++|.+...+.|.+.+..+ .-.+..+++|+.|+||+++|..+++.+ +..              ++...|+...... 
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~-rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~-   81 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQN-RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH-   81 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhC-CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc-
Confidence            36789999999999998843 235889999999999999999998875 222              1111222100000 


Q ss_pred             cCCCcHHHHHHHHHHHHhcccCC-CccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCce
Q 045677           74 DKEGSVISLQKQLLSDLLMLADN-SIRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSM  145 (352)
Q Consensus        74 ~~~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~  145 (352)
                      ... .   .-............. ..-.++ .+..+...+     .+.+-++|||+++.  ......++..+.+.+ .+.
T Consensus        82 ~g~-~---~~~~~~~~~~~~~~~~~~I~id-~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         82 QGK-L---ITASEAEEAGLKRKAPPQIRLE-QIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             ccc-c---cchhhhhhccccccccccCcHH-HHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence            000 0   000000000000000 000111 122233332     24567999999964  345667777776555 555


Q ss_pred             EEEEe-CchhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          146 IIITT-RDEHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       146 iiits-r~~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      +|+++ ..+.+.+. ......+.+.+++.++..+++.+....  ...   ......++..++|.|......
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~--~~~---~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDE--EIL---NINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcc--ccc---hhHHHHHHHHcCCCHHHHHHH
Confidence            55544 44444443 345678999999999999999886521  111   112467889999999766543

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

Probab=98.59  E-value=3.6e-07  Score=79.03  Aligned_cols=167  Identities=18%  Similarity=0.261  Sum_probs=100.6

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEE-EEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRT-IGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~-v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      ...+.+.+|+.++..|..++.......+. |.|+|.+|+|||.+++++.+....+   .+|+.....     ..+..++.
T Consensus         3 ~l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~---~vw~n~~ec-----ft~~~lle   74 (438)
T KOG2543|consen    3 VLEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE---NVWLNCVEC-----FTYAILLE   74 (438)
T ss_pred             ccccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc---ceeeehHHh-----ccHHHHHH
Confidence            45678999999999999999975543444 5899999999999999999887333   567653222     22266777


Q ss_pred             HHHHHHhcccCCC-c-----cchhhhHHHHHh--hhC--CceEEEEEeCCCChhhhhhh--------hCCCCCCCCCceE
Q 045677           85 QLLSDLLMLADNS-I-----RNVYDGVNMIGS--RLR--HKKVLLLIDDVADVEQLRGL--------FGKRDWFGLGSMI  146 (352)
Q Consensus        85 ~~~~~~~~~~~~~-~-----~~~~~~~~~~~~--~l~--~~~~llvlDd~~~~~~~~~l--------~~~~~~~~~~~~i  146 (352)
                      .++......+... .     .........+..  ...  ++.++||+|+++...++...        ...++   .....
T Consensus        75 ~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~---~~~i~  151 (438)
T KOG2543|consen   75 KILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLN---EPTIV  151 (438)
T ss_pred             HHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC---CCceE
Confidence            7777653111111 1     223333444443  122  46899999999765543221        12222   22334


Q ss_pred             EEEeCch---hHhh--hcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          147 IITTRDE---HLLK--LHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       147 iitsr~~---~~~~--~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      |+++-..   ....  ..-...++.++..+.+|...++.+..
T Consensus       152 iils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  152 IILSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             EEEeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence            4444322   1111  11123467789999999999886543

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.57  E-value=1.4e-06  Score=80.62  Aligned_cols=159  Identities=17%  Similarity=0.278  Sum_probs=88.8

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc-----ceeEeeecccc
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD-----GSSFLADVRER   72 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~-----~~~~~~~~~~~   72 (352)
                      ..+.|.+.+++++.+.+..           +-..++-++++||+|+|||++|+.+++.+.....     ...|+. +...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~-v~~~  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN-IKGP  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe-ccch
Confidence            4467899999988876531           1223566999999999999999999998765521     122221 1110


Q ss_pred             ccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCChh---------h-----hhhhhCCC
Q 045677           73 CDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADVE---------Q-----LRGLFGKR  137 (352)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~~---------~-----~~~l~~~~  137 (352)
                                  .++..+.+..   ...+.......+.. ..+++++|+||+++...         +     +..++..+
T Consensus       261 ------------eLl~kyvGet---e~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~L  325 (512)
T TIGR03689       261 ------------ELLNKYVGET---ERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSEL  325 (512)
T ss_pred             ------------hhcccccchH---HHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHh
Confidence                        1111100000   00111122222222 23578999999996321         1     23444443


Q ss_pred             CCCC--CCceEEEEeCchhH-----hhhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          138 DWFG--LGSMIIITTRDEHL-----LKLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       138 ~~~~--~~~~iiitsr~~~~-----~~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ....  .+..+|.||.....     ....++...++++..+.++..++|....
T Consensus       326 Dgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       326 DGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             cccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3211  33445555543322     1112456679999999999999998876

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.

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

Probab=98.55  E-value=5.3e-06  Score=73.83  Aligned_cols=206  Identities=14%  Similarity=0.148  Sum_probs=117.7

Q ss_pred             CCCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcc-eeEeeeccccccCCCcHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDG-SSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ..+...+||+.|+..+.+|+..  .......+.|.|.+|+|||.+...++.+....... ...+.++.........|..+
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            3567899999999999999886  23445778899999999999999999887666544 22223332223333333444


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCC--ceEEEEEeCCCChhh--hhhhhCCCCCC-CCCceEEEEeCc-----
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRH--KKVLLLIDDVADVEQ--LRGLFGKRDWF-GLGSMIIITTRD-----  152 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~llvlDd~~~~~~--~~~l~~~~~~~-~~~~~iiitsr~-----  152 (352)
                      +..++........    . .+....+.....+  ..+|+|+|+.+....  -..+...+.+. -.++++|+..--     
T Consensus       227 ~~~~~q~~~s~~~----~-~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDl  301 (529)
T KOG2227|consen  227 FSSLLQDLVSPGT----G-MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDL  301 (529)
T ss_pred             HHHHHHHhcCCch----h-HHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhH
Confidence            4444333222221    1 4444555555433  478999999864321  11111111111 124444432211     


Q ss_pred             -hhHhhhc-----CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          153 -EHLLKLH-----RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       153 -~~~~~~~-----~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                       +..++..     -....+..+|.+.++..+++.++.... .........++.+++++.|.---+..+...
T Consensus       302 TdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~-~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv  371 (529)
T KOG2227|consen  302 TDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEE-STSIFLNAAIELCARKVAAPSGDLRKALDV  371 (529)
T ss_pred             HHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcc-cccccchHHHHHHHHHhccCchhHHHHHHH
Confidence             1111111     123568889999999999999887332 222233445666666666665555544333

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=7.1e-06  Score=71.71  Aligned_cols=180  Identities=13%  Similarity=0.064  Sum_probs=99.2

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec-cc--cccCCCcHHHHHHHHHHHHhccc
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV-RE--RCDKEGSVISLQKQLLSDLLMLA   94 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~l~~~~~~~~~~~~   94 (352)
                      .+.|...+..+ .-++.++++|+.|+||+++|..+++.+--......-.+.. .-  ....++. .     ++.. ....
T Consensus        13 ~~~l~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~-~-----~i~~-~p~~   84 (319)
T PRK08769         13 YDQTVAALDAG-RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDL-Q-----LVSF-IPNR   84 (319)
T ss_pred             HHHHHHHHHcC-CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCE-E-----EEec-CCCc
Confidence            35556655532 2356788999999999999999998752221100000000 00  0000000 0     0000 0000


Q ss_pred             CCC---ccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc-hhHhhhc-Ccc
Q 045677           95 DNS---IRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD-EHLLKLH-RVE  162 (352)
Q Consensus        95 ~~~---~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~~~-~~~  162 (352)
                      ...   ..-.-+.+..+.+.+     .++.-++|||+++.  ...-..++..+.+.+.++.+|+++.+ ..+.+.. ...
T Consensus        85 ~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRC  164 (319)
T PRK08769         85 TGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRC  164 (319)
T ss_pred             ccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhh
Confidence            000   000111122222222     23556999999974  45677787777776778877776654 4444443 456


Q ss_pred             cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHH
Q 045677          163 EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       163 ~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                      ..+.+.+++.+++.+.+.+..    ..    +..+..+...++|.|+....
T Consensus       165 q~i~~~~~~~~~~~~~L~~~~----~~----~~~a~~~~~l~~G~p~~A~~  207 (319)
T PRK08769        165 QRLEFKLPPAHEALAWLLAQG----VS----ERAAQEALDAARGHPGLAAQ  207 (319)
T ss_pred             eEeeCCCcCHHHHHHHHHHcC----CC----hHHHHHHHHHcCCCHHHHHH
Confidence            789999999999999987642    11    23356778999999985543

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

Probab=98.53  E-value=3.2e-06  Score=77.72  Aligned_cols=193  Identities=13%  Similarity=0.151  Sum_probs=118.7

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-c----ceeEeeeccccccCCCcHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-D----GSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .++||.+.-.+.|...+..+ .-.+..+.+|+-|+||||+|+.++..+--.- .    ++.... +...... .. .++.
T Consensus        16 ~evvGQe~v~~~L~nal~~~-ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~-Ck~I~~g-~~-~Dvi   91 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENG-RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCIS-CKEINEG-SL-IDVI   91 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhC-cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhh-hHhhhcC-Cc-ccch
Confidence            45699999999999998853 2346678999999999999999998752211 0    110000 0000000 00 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCchh-H-hhh
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDEH-L-LKL  158 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~~-~-~~~  158 (352)
                      .-     -..+....+++.++.+.+... ..++.=++|||+++  +...+..++..+...+.+..+|+.|.+.. + ...
T Consensus        92 Ei-----DaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TI  166 (515)
T COG2812          92 EI-----DAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTI  166 (515)
T ss_pred             hh-----hhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhh
Confidence            00     001111122222222222211 12455599999996  66789999999988888888888777653 2 222


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      ...++.+.++.++.++....+...+.....  ...++.+..|.+..+|...-..
T Consensus       167 lSRcq~f~fkri~~~~I~~~L~~i~~~E~I--~~e~~aL~~ia~~a~Gs~RDal  218 (515)
T COG2812         167 LSRCQRFDFKRLDLEEIAKHLAAILDKEGI--NIEEDALSLIARAAEGSLRDAL  218 (515)
T ss_pred             hhccccccccCCCHHHHHHHHHHHHHhcCC--ccCHHHHHHHHHHcCCChhhHH
Confidence            456778999999999999999887743222  2345778888888888655433

>CHL00176 ftsH cell division protein; Validated

Probab=98.53  E-value=2.7e-06  Score=81.26  Aligned_cols=181  Identities=15%  Similarity=0.198  Sum_probs=101.7

Q ss_pred             cCcccccHHHHHHHHHH---hcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLM---CTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l---~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      .+++|.+...+++.+.+   ...       ....+-++++||+|+|||+||+.++......|    +....         
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~----i~is~---------  249 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPF----FSISG---------  249 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe----eeccH---------
Confidence            34677777666665543   321       12245699999999999999999998764332    11111         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCCC--
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDWF--  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~--  140 (352)
                       .++.    ....+      .........+.......+++|+|||++...                .+..++..+...  
T Consensus       250 -s~f~----~~~~g------~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~  318 (638)
T CHL00176        250 -SEFV----EMFVG------VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG  318 (638)
T ss_pred             -HHHH----HHhhh------hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC
Confidence             1111    11000      011122333444556788999999995431                133444333211  


Q ss_pred             CCCceEEEEeCchh-H----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHHH
Q 045677          141 GLGSMIIITTRDEH-L----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDVL  214 (352)
Q Consensus       141 ~~~~~iiitsr~~~-~----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~~  214 (352)
                      ..+..+|.+|.... +    ....++...+.++..+.++-.++++........   ........+++.+.| .+.-|..+
T Consensus       319 ~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~---~~d~~l~~lA~~t~G~sgaDL~~l  395 (638)
T CHL00176        319 NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL---SPDVSLELIARRTPGFSGADLANL  395 (638)
T ss_pred             CCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc---chhHHHHHHHhcCCCCCHHHHHHH
Confidence            23445555554432 1    112345678889999999999998877643221   123456778888887 55556555


Q ss_pred             HH
Q 045677          215 VS  216 (352)
Q Consensus       215 ~~  216 (352)
                      +.
T Consensus       396 vn  397 (638)
T CHL00176        396 LN  397 (638)
T ss_pred             HH
Confidence            44

>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=98.52  E-value=9.3e-07  Score=67.39  Aligned_cols=24  Identities=42%  Similarity=0.544  Sum_probs=21.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      |+|+|++|+|||++++.+++.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~   24 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGF   24 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhccc
Confidence            579999999999999999999853

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 ....

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

Probab=98.51  E-value=2.5e-06  Score=77.10  Aligned_cols=181  Identities=14%  Similarity=0.144  Sum_probs=98.4

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..+.|-+...++|.+.+..           +-..++-++++|++|+|||++|+.++......|   +.+. .        
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~f---i~i~-~--------  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF---IRVV-G--------  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe-h--------
Confidence            4567888888887775531           113457799999999999999999998765432   1111 0        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC--
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW--  139 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~--  139 (352)
                        ..    +.....+.      ........+.......+.+|+||+++...                .+..++..+..  
T Consensus       213 --s~----l~~k~~ge------~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~  280 (398)
T PTZ00454        213 --SE----FVQKYLGE------GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFD  280 (398)
T ss_pred             --HH----HHHHhcch------hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccC
Confidence              01    11111110      01111222333345678999999985321                12233333221  


Q ss_pred             CCCCceEEEEeCchh-Hhh----hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhHHH
Q 045677          140 FGLGSMIIITTRDEH-LLK----LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAVDV  213 (352)
Q Consensus       140 ~~~~~~iiitsr~~~-~~~----~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i~~  213 (352)
                      ...+..+|+||.... +.+    ..+....+.++..+.++...+++..........   .-....++..+.|+. .-|+.
T Consensus       281 ~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~---dvd~~~la~~t~g~sgaDI~~  357 (398)
T PTZ00454        281 QTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSE---EVDLEDFVSRPEKISAADIAA  357 (398)
T ss_pred             CCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCc---ccCHHHHHHHcCCCCHHHHHH
Confidence            123556676665432 212    124566789988888888887775542211111   122556777776653 33444


Q ss_pred             HHH
Q 045677          214 LVS  216 (352)
Q Consensus       214 ~~~  216 (352)
                      ++.
T Consensus       358 l~~  360 (398)
T PTZ00454        358 ICQ  360 (398)
T ss_pred             HHH
Confidence            433

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.49  E-value=6.6e-06  Score=77.29  Aligned_cols=181  Identities=18%  Similarity=0.230  Sum_probs=98.5

Q ss_pred             cCcccccHHHHHHHHHHh---c-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMC---T-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~---~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ++++|-+...+++.+.+.   .       +....+-++++||+|+|||+||+.++......|    +....         
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~----~~i~~---------  121 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF----FSISG---------  121 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCe----eeccH---------
Confidence            456787766655554333   1       123345689999999999999999998754332    11110         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCCC--
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDWF--  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~--  140 (352)
                       .++    .....+.      ....+...+.......+.+|+||+++...                .+..++..+...  
T Consensus       122 -~~~----~~~~~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~  190 (495)
T TIGR01241       122 -SDF----VEMFVGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT  190 (495)
T ss_pred             -HHH----HHHHhcc------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC
Confidence             111    1111110      11122233344445678899999995421                122333333211  


Q ss_pred             CCCceEEEEeCchh-----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHHH
Q 045677          141 GLGSMIIITTRDEH-----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDVL  214 (352)
Q Consensus       141 ~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~~  214 (352)
                      ..+..||.||....     +....++...+.++..+.++-.++++..........   ......+++.+.| .+.-|..+
T Consensus       191 ~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~---~~~l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       191 NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP---DVDLKAVARRTPGFSGADLANL  267 (495)
T ss_pred             CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc---chhHHHHHHhCCCCCHHHHHHH
Confidence            22334555554332     122234567899999999888888877663322221   2335678888887 44556655


Q ss_pred             HH
Q 045677          215 VS  216 (352)
Q Consensus       215 ~~  216 (352)
                      ++
T Consensus       268 ~~  269 (495)
T TIGR01241       268 LN  269 (495)
T ss_pred             HH
Confidence            44

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.49  E-value=5.7e-06  Score=71.68  Aligned_cols=152  Identities=14%  Similarity=0.165  Sum_probs=81.3

Q ss_pred             CcccccHHHHHHHHHHh---c-------C---CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC--cceeEeeecccccc
Q 045677           10 ELVGMESRLEKLKFLMC---T-------G---SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF--DGSSFLADVRERCD   74 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~---~-------~---~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~--~~~~~~~~~~~~~~   74 (352)
                      .++|-+...+++.++..   .       +   ......++++|++|+|||++|+.++..+....  ....++..    +.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v----~~   98 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSV----TR   98 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEe----cH
Confidence            56776666666544322   1       0   11233688999999999999988887654321  11122220    00


Q ss_pred             CCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-----------hhhhhhhCCCCCCCCC
Q 045677           75 KEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-----------EQLRGLFGKRDWFGLG  143 (352)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-----------~~~~~l~~~~~~~~~~  143 (352)
                           .    .+...+.+...      ......+...   .+-+|+||+++..           +....++..+.....+
T Consensus        99 -----~----~l~~~~~g~~~------~~~~~~~~~a---~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~  160 (284)
T TIGR02880        99 -----D----DLVGQYIGHTA------PKTKEILKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDD  160 (284)
T ss_pred             -----H----HHhHhhcccch------HHHHHHHHHc---cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCC
Confidence                 1    12222211110      1111222221   2358999999632           2234445544444456


Q ss_pred             ceEEEEeCchhHhhh--------cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          144 SMIIITTRDEHLLKL--------HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       144 ~~iiitsr~~~~~~~--------~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      .+||+++..+.....        .+....+.+++++.+|...++....
T Consensus       161 ~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l  208 (284)
T TIGR02880       161 LVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLML  208 (284)
T ss_pred             EEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHH
Confidence            677777654322111        1234679999999999999988765

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.

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

Probab=98.48  E-value=4.6e-06  Score=71.83  Aligned_cols=171  Identities=16%  Similarity=0.210  Sum_probs=94.8

Q ss_pred             ccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHH
Q 045677           12 VGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (352)
                      =|-+.++++|.+...-           +=..++-|++|||||+|||-||+.++++....|-   -++.           .
T Consensus       154 GGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFI---rvvg-----------S  219 (406)
T COG1222         154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFI---RVVG-----------S  219 (406)
T ss_pred             cCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEE---Eecc-----------H
Confidence            3667777777775542           1145677999999999999999999987654431   1110           1


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCChh----------------hhhhhhCCCCCC--C
Q 045677           81 SLQKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADVE----------------QLRGLFGKRDWF--G  141 (352)
Q Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~--~  141 (352)
                          ++...+.+..+       .++..+.+. -...+.+|++|+++...                .+-+++..+.-+  .
T Consensus       220 ----ElVqKYiGEGa-------RlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         220 ----ELVQKYIGEGA-------RLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             ----HHHHHHhccch-------HHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence                23333332221       122222222 24679999999995321                233444444322  3


Q ss_pred             CCceEEEEeCch-----hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          142 LGSMIIITTRDE-----HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       142 ~~~~iiitsr~~-----~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .+.+||..|...     .++...+....++++ ++..+.+.-+.+..-........  -.++.+++.|.|.--|
T Consensus       289 ~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfp-lPd~~gR~~Il~IHtrkM~l~~d--vd~e~la~~~~g~sGA  359 (406)
T COG1222         289 GNVKVIMATNRPDILDPALLRPGRFDRKIEFP-LPDEEGRAEILKIHTRKMNLADD--VDLELLARLTEGFSGA  359 (406)
T ss_pred             CCeEEEEecCCccccChhhcCCCcccceeecC-CCCHHHHHHHHHHHhhhccCccC--cCHHHHHHhcCCCchH
Confidence            567888766433     233345667788887 55554544444433222222111  1256677777776543

>CHL00181 cbbX CbbX; Provisional

Probab=98.43  E-value=2.5e-05  Score=67.73  Aligned_cols=130  Identities=15%  Similarity=0.163  Sum_probs=72.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC-C-cceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE-F-DGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIG  109 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (352)
                      ...++++|++|+|||++|+.++..+... + ....|+. .   +    . .    .+...+.+...      ......+.
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~-v---~----~-~----~l~~~~~g~~~------~~~~~~l~  119 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT-V---T----R-D----DLVGQYIGHTA------PKTKEVLK  119 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE-e---c----H-H----HHHHHHhccch------HHHHHHHH
Confidence            3458899999999999999998875322 1 1111221 0   0    0 1    12222211110      11111222


Q ss_pred             hhhCCceEEEEEeCCCCh-----------hhhhhhhCCCCCCCCCceEEEEeCchhHhh--------hcCcccEEecCCC
Q 045677          110 SRLRHKKVLLLIDDVADV-----------EQLRGLFGKRDWFGLGSMIIITTRDEHLLK--------LHRVEEVYKLEAL  170 (352)
Q Consensus       110 ~~l~~~~~llvlDd~~~~-----------~~~~~l~~~~~~~~~~~~iiitsr~~~~~~--------~~~~~~~~~l~~l  170 (352)
                      . .  .+-+|+||+++..           +....++..+.....+.+||+++..+.+..        ..+....+.++++
T Consensus       120 ~-a--~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~  196 (287)
T CHL00181        120 K-A--MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDY  196 (287)
T ss_pred             H-c--cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCc
Confidence            2 1  2349999999642           234444444444445667777776433211        1234568999999


Q ss_pred             CHhHHHHHHHhhh
Q 045677          171 NFDEAFRLFCLKA  183 (352)
Q Consensus       171 ~~~e~~~ll~~~~  183 (352)
                      +.+|..+++...+
T Consensus       197 t~~el~~I~~~~l  209 (287)
T CHL00181        197 TPEELLQIAKIML  209 (287)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999888776

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.42  E-value=3.3e-06  Score=78.15  Aligned_cols=154  Identities=16%  Similarity=0.154  Sum_probs=83.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      .++-++++||+|+|||.+|+.++......+    +..+...              +.....+.      ....+...+..
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~~--------------l~~~~vGe------se~~l~~~f~~  313 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVGK--------------LFGGIVGE------SESRMRQMIRI  313 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhHH--------------hcccccCh------HHHHHHHHHHH
Confidence            457799999999999999999998865432    2221111              11000000      01111222232


Q ss_pred             hhCCceEEEEEeCCCChhh--------------hhhhhCCCCCCCCCceEEEEeCchh-----HhhhcCcccEEecCCCC
Q 045677          111 RLRHKKVLLLIDDVADVEQ--------------LRGLFGKRDWFGLGSMIIITTRDEH-----LLKLHRVEEVYKLEALN  171 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~--------------~~~l~~~~~~~~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~  171 (352)
                      .-...+++|+||+++..-.              +..++..+.....+..||.||.+..     +....++...+.++.-+
T Consensus       314 A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~  393 (489)
T CHL00195        314 AEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPS  393 (489)
T ss_pred             HHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcC
Confidence            3345789999999953210              1222222222233444555665432     22223566788888888


Q ss_pred             HhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          172 FDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       172 ~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      .++-.++++....... +........+.+++.+.|+--
T Consensus       394 ~~eR~~Il~~~l~~~~-~~~~~~~dl~~La~~T~GfSG  430 (489)
T CHL00195        394 LEEREKIFKIHLQKFR-PKSWKKYDIKKLSKLSNKFSG  430 (489)
T ss_pred             HHHHHHHHHHHHhhcC-CCcccccCHHHHHhhcCCCCH
Confidence            8888888877663322 111112346677777777643

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.42  E-value=3.8e-05  Score=67.31  Aligned_cols=172  Identities=12%  Similarity=0.105  Sum_probs=99.2

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCCcceeEeeeccccccCCCcHHHHHHHHHHHH------h
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL------L   91 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------~   91 (352)
                      +.|.+.+..+ .-++...++|+.|+||+++|..+++.+ +..-.... -+  +.        =..++.+....      .
T Consensus        12 ~~l~~~~~~~-rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~-~C--g~--------C~sC~~~~~g~HPD~~~i   79 (325)
T PRK06871         12 QQITQAFQQG-LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQ-PC--GQ--------CHSCHLFQAGNHPDFHIL   79 (325)
T ss_pred             HHHHHHHHcC-CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCC-CC--CC--------CHHHHHHhcCCCCCEEEE
Confidence            4555555532 235778899999999999999999875 22211000 00  00        00111111000      0


Q ss_pred             cccCCCccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCcc
Q 045677           92 MLADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRVE  162 (352)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~~  162 (352)
                      .......-.+++ +..+.+.+     .++.=++|||+++.  ...-..++..+.+.+.++.+|++|.+. .+.+. ....
T Consensus        80 ~p~~~~~I~id~-iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC  158 (325)
T PRK06871         80 EPIDNKDIGVDQ-VREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRC  158 (325)
T ss_pred             ccccCCCCCHHH-HHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhc
Confidence            000000011111 12222222     24556888999974  456788888888778888877777654 44433 3456


Q ss_pred             cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          163 EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       163 ~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ..+.+.+++.+++.+.+.+...   ..    ...+......++|.|.-
T Consensus       159 ~~~~~~~~~~~~~~~~L~~~~~---~~----~~~~~~~~~l~~g~p~~  199 (325)
T PRK06871        159 QTWLIHPPEEQQALDWLQAQSS---AE----ISEILTALRINYGRPLL  199 (325)
T ss_pred             eEEeCCCCCHHHHHHHHHHHhc---cC----hHHHHHHHHHcCCCHHH
Confidence            7899999999999999887641   11    12356678889999963

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

Probab=98.42  E-value=2.6e-05  Score=66.56  Aligned_cols=200  Identities=19%  Similarity=0.130  Sum_probs=109.8

Q ss_pred             cCcccccHH---HHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc-----ceeEeeeccccccCCCcH
Q 045677            9 KELVGMESR---LEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD-----GSSFLADVRERCDKEGSV   79 (352)
Q Consensus         9 ~~~vGR~~~---l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~   79 (352)
                      +.+||-...   ++.|.+++.. +..+.+.++|+|++|+|||++++.+.......++     .-+++..   ..+..+. 
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq---~P~~p~~-  109 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ---MPPEPDE-  109 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe---cCCCCCh-
Confidence            445665443   4566666665 4456688999999999999999999986433221     1233332   2333333 


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC-CceEEEEEeCCCCh-----hhhhhh---hCCCCCCCCCceEE-EE
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR-HKKVLLLIDDVADV-----EQLRGL---FGKRDWFGLGSMII-IT  149 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~llvlDd~~~~-----~~~~~l---~~~~~~~~~~~~ii-it  149 (352)
                      ..+...++..++.+..... ............+. -+.-+||||++++.     ..-+.+   +..+.+ .-...|| +-
T Consensus       110 ~~~Y~~IL~~lgaP~~~~~-~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~N-eL~ipiV~vG  187 (302)
T PF05621_consen  110 RRFYSAILEALGAPYRPRD-RVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGN-ELQIPIVGVG  187 (302)
T ss_pred             HHHHHHHHHHhCcccCCCC-CHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhh-ccCCCeEEec
Confidence            7888888888776554332 33333333334443 24459999999642     111222   222211 1222344 33


Q ss_pred             eCchhH-----hhhcCcccEEecCCCCHh-HHHHHHHhhh--cCCC-CCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          150 TRDEHL-----LKLHRVEEVYKLEALNFD-EAFRLFCLKA--FDTY-KPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       150 sr~~~~-----~~~~~~~~~~~l~~l~~~-e~~~ll~~~~--~~~~-~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      |++-..     ....+....+.|+.+..+ +...|+....  ..-. ...-...+.+..|+..++|+.--+..+
T Consensus       188 t~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  188 TREAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             cHHHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            332211     111123456778887765 4566654432  1111 111234678899999999998766544

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

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

Probab=98.40  E-value=1.3e-05  Score=72.69  Aligned_cols=221  Identities=19%  Similarity=0.123  Sum_probs=123.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR  113 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  113 (352)
                      +++|+||-++||||++..+.......   .+++.........    ..+ .+....                  +...-.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~----~~l-~d~~~~------------------~~~~~~   92 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDR----IEL-LDLLRA------------------YIELKE   92 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcch----hhH-HHHHHH------------------HHHhhc
Confidence            99999999999999997777665544   4444321111111    111 111111                  111111


Q ss_pred             CceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhHhhh-----c-CcccEEecCCCCHhHHHHHHHhhhcCCC
Q 045677          114 HKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKL-----H-RVEEVYKLEALNFDEAFRLFCLKAFDTY  187 (352)
Q Consensus       114 ~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~-----~-~~~~~~~l~~l~~~e~~~ll~~~~~~~~  187 (352)
                      .++..++||.|.....|...+..+.+.+.. .+++|+.+..+...     . .....+.+.|||..|...+.....    
T Consensus        93 ~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~----  167 (398)
T COG1373          93 REKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEI----  167 (398)
T ss_pred             cCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhccccc----
Confidence            267899999999999988888777654444 78888776543222     1 234578999999999887543000    


Q ss_pred             CCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHHHHHccCCchhHH-HHHHhhh-ccCcHhhhhhhhhh-c
Q 045677          188 KPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRDPENKIL-GILQISF-DGLKEAEKNIFLDV-A  264 (352)
Q Consensus       188 ~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~-~~L~~~~~~~l~~l-s  264 (352)
                      ... .. ...-.-+-.+||.|.++..--..-.      ......       ..+. ++....- ... ...++++..+ +
T Consensus       168 ~~~-~~-~~~f~~Yl~~GGfP~~v~~~~~~~~------~~~~~~-------~~~~~Di~~~~~~~~~-~~~k~i~~~l~~  231 (398)
T COG1373         168 EPS-KL-ELLFEKYLETGGFPESVKADLSEKK------LKEYLD-------TILKRDIIERGKIENA-DLMKRILRFLAS  231 (398)
T ss_pred             chh-HH-HHHHHHHHHhCCCcHHHhCcchhhH------HHHHHH-------HHHHHHHHHHcCcccH-HHHHHHHHHHHh
Confidence            000 11 1133445678999987744211100      111100       1111 1111110 111 3445555444 4


Q ss_pred             cCCCCCCHHHHHHHH-HhcCCCchhchHHHhhccceee
Q 045677          265 CFYKWENRDYVSKIL-DSCGFDPIIGISVLIEKSLLTV  301 (352)
Q Consensus       265 ~~~~~~~~~~l~~~~-~~~~~~~~~~l~~L~~~~li~~  301 (352)
                      -.+..++.+.+...+ +........+++.|.+.-++..
T Consensus       232 ~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~  269 (398)
T COG1373         232 NIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLFL  269 (398)
T ss_pred             hcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheEE
Confidence            456678999999888 4555556777888888777763

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.40  E-value=1.5e-05  Score=70.60  Aligned_cols=161  Identities=13%  Similarity=0.055  Sum_probs=91.4

Q ss_pred             Cccc-ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc-CCCcceeEeeeccccccCCCcHHHHHHHHH
Q 045677           10 ELVG-MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS-HEFDGSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus        10 ~~vG-R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      .++| -+..++.|...+..+ .-++..+++|+.|+|||++|..+++.+- ....... -++   .       -..+..+.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-~cg---~-------C~~c~~~~   73 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-PCG---T-------CTNCKRID   73 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-CCC---c-------CHHHHHHh
Confidence            3566 666677888877743 3457789999999999999999988752 2210000 000   0       00111111


Q ss_pred             HHHhc-----ccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hH
Q 045677           88 SDLLM-----LADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HL  155 (352)
Q Consensus        88 ~~~~~-----~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~  155 (352)
                      .....     ......-.+++..+.+...    ..+.+-++|||+++.  ......++..+.+.+.++.+|++|.+. .+
T Consensus        74 ~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~l  153 (329)
T PRK08058         74 SGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQI  153 (329)
T ss_pred             cCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhC
Confidence            00000     0000011112221111111    124556899999964  445677887877777788877777543 33


Q ss_pred             hhh-cCcccEEecCCCCHhHHHHHHHhh
Q 045677          156 LKL-HRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       156 ~~~-~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      .+. ......+++.+++.++..+.+.+.
T Consensus       154 l~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        154 LPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             cHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            332 345678999999999998888764

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

Probab=98.40  E-value=6.1e-06  Score=75.21  Aligned_cols=180  Identities=16%  Similarity=0.149  Sum_probs=98.4

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..+.|.+.+++++.+.+.-           +-...+.++++|++|+|||++|+.++......|-   .+. .        
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi---~V~-~--------  250 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFL---RVV-G--------  250 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEE---EEe-c--------
Confidence            4467889999988887642           1123567889999999999999999998765431   111 0        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC--
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW--  139 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~--  139 (352)
                        ..+.    ..+.+.      ........+.....+.+.+|+||+++...                .+..++..+..  
T Consensus       251 --seL~----~k~~Ge------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~  318 (438)
T PTZ00361        251 --SELI----QKYLGD------GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFD  318 (438)
T ss_pred             --chhh----hhhcch------HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhc
Confidence              0111    111100      01111222233334678899999984221                12223322221  


Q ss_pred             CCCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh-HHH
Q 045677          140 FGLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA-VDV  213 (352)
Q Consensus       140 ~~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~-i~~  213 (352)
                      ...+..||++|.... +.+.    .+....+.++..+.++..+++...........   .-....++..+.|+--+ |..
T Consensus       319 ~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~---dvdl~~la~~t~g~sgAdI~~  395 (438)
T PTZ00361        319 SRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAE---DVDLEEFIMAKDELSGADIKA  395 (438)
T ss_pred             ccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCc---CcCHHHHHHhcCCCCHHHHHH
Confidence            123556777666432 2221    24556899999999999998886652221111   11245566666654433 444


Q ss_pred             HH
Q 045677          214 LV  215 (352)
Q Consensus       214 ~~  215 (352)
                      ++
T Consensus       396 i~  397 (438)
T PTZ00361        396 IC  397 (438)
T ss_pred             HH
Confidence            43

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.39  E-value=3.2e-05  Score=68.26  Aligned_cols=90  Identities=13%  Similarity=0.154  Sum_probs=62.8

Q ss_pred             CceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc-hhHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCC
Q 045677          114 HKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD-EHLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKP  189 (352)
Q Consensus       114 ~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~  189 (352)
                      ++.=++|||+++  +......++..+.+.+.++.+|++|.+ +.+.+. ......+.+.+++.++..+.+.+...    .
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~~----~  206 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQGV----A  206 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcCC----C
Confidence            345589999997  456688888888877778876665554 445444 34567899999999999999877531    1


Q ss_pred             chhHHHHHHHHHHHcCCCchhHHH
Q 045677          190 LEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       190 ~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                      .      .+.+...++|.|.-...
T Consensus       207 ~------~~~~l~~~~Gsp~~Al~  224 (342)
T PRK06964        207 D------ADALLAEAGGAPLAALA  224 (342)
T ss_pred             h------HHHHHHHcCCCHHHHHH
Confidence            1      12357788999974443

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.38  E-value=5.9e-06  Score=78.50  Aligned_cols=53  Identities=21%  Similarity=0.283  Sum_probs=43.2

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcC---CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTG---SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~---~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      |..-..++|-+..++.+..|+...   ....++++|+|++|+||||++..++..+.
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            445567899999999999998862   23446799999999999999999987654

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

>PRK08116 hypothetical protein; Validated

Probab=98.36  E-value=3.2e-06  Score=72.54  Aligned_cols=101  Identities=23%  Similarity=0.248  Sum_probs=55.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      ..++|+|++|+|||.||..+++.+..+....+++. .          ..++..+...+....   ...    ...+.+.+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-~----------~~ll~~i~~~~~~~~---~~~----~~~~~~~l  176 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-F----------PQLLNRIKSTYKSSG---KED----ENEIIRSL  176 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-H----------HHHHHHHHHHHhccc---ccc----HHHHHHHh
Confidence            46889999999999999999999866533334332 1          334444433322111   111    11123333


Q ss_pred             CCceEEEEEeCCC--Chhh--hhhhhCCCCC-CCCCceEEEEeCc
Q 045677          113 RHKKVLLLIDDVA--DVEQ--LRGLFGKRDW-FGLGSMIIITTRD  152 (352)
Q Consensus       113 ~~~~~llvlDd~~--~~~~--~~~l~~~~~~-~~~~~~iiitsr~  152 (352)
                      .+-+ ||||||+.  ...+  ...++..+.. ...+..+|+||..
T Consensus       177 ~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        177 VNAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             cCCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            3333 89999993  2222  2333333321 1245568888863

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.36  E-value=2.4e-05  Score=75.03  Aligned_cols=48  Identities=29%  Similarity=0.360  Sum_probs=39.1

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .-+.++|++..++.+.+.+..  .....++|+|++|+||||||+.+....
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            335689999999998887763  334679999999999999999988765

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.35  E-value=4.5e-05  Score=67.51  Aligned_cols=169  Identities=14%  Similarity=0.093  Sum_probs=99.6

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCC----cceeEeeeccccccCCCcHHHHHHHHHHH---
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEF----DGSSFLADVRERCDKEGSVISLQKQLLSD---   89 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---   89 (352)
                      -++|.+.+..+ .-++..+++|+.|+||+++|..+++.+ +.+.    .++..               ..++.+...   
T Consensus        11 ~~~l~~~~~~~-rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C---------------~sC~~~~~g~HP   74 (334)
T PRK07993         11 YEQLVGSYQAG-RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHC---------------RGCQLMQAGTHP   74 (334)
T ss_pred             HHHHHHHHHcC-CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCC---------------HHHHHHHcCCCC
Confidence            34565655532 335788899999999999999999875 2211    11110               001111000   


Q ss_pred             ----HhcccCCCccchhhhHHHHHhhh-----CCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc-hhHhh
Q 045677           90 ----LLMLADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD-EHLLK  157 (352)
Q Consensus        90 ----~~~~~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~  157 (352)
                          +........-.+++ +..+.+.+     .+..=++|||+++  +...-..++..+.+.+.++.+|++|.+ +.+.+
T Consensus        75 D~~~i~p~~~~~~I~idq-iR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLp  153 (334)
T PRK07993         75 DYYTLTPEKGKSSLGVDA-VREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLA  153 (334)
T ss_pred             CEEEEecccccccCCHHH-HHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChH
Confidence                00000000011111 12222222     2456699999997  445678888888877788887776665 34444


Q ss_pred             h-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          158 L-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       158 ~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      . ......+.+.+++.+++.+.+.+.. +  ..    ++.+..++..++|.|.-
T Consensus       154 TIrSRCq~~~~~~~~~~~~~~~L~~~~-~--~~----~~~a~~~~~la~G~~~~  200 (334)
T PRK07993        154 TLRSRCRLHYLAPPPEQYALTWLSREV-T--MS----QDALLAALRLSAGAPGA  200 (334)
T ss_pred             HHHhccccccCCCCCHHHHHHHHHHcc-C--CC----HHHHHHHHHHcCCCHHH
Confidence            4 3456678999999999999886642 1  11    23466788999999963

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=7.8e-05  Score=65.20  Aligned_cols=172  Identities=10%  Similarity=0.083  Sum_probs=99.5

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCCcceeEeeeccccccCCCcHHHHHHHHHHHHh------
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLL------   91 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------   91 (352)
                      +.|.+.+.. +.-++.+.++|+.|+||+++|..+++.+ +.+....    .++..        ..+..+.....      
T Consensus        13 ~~l~~~~~~-~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~----~Cg~C--------~sC~~~~~g~HPD~~~i   79 (319)
T PRK06090         13 QNWKAGLDA-GRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSE----ACGFC--------HSCELMQSGNHPDLHVI   79 (319)
T ss_pred             HHHHHHHHc-CCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCC----CCCCC--------HHHHHHHcCCCCCEEEE
Confidence            455555553 2335788999999999999999999874 3221100    00000        01111111000      


Q ss_pred             ccc-CCCccchhhhHHHHHhhh-----CCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCc
Q 045677           92 MLA-DNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRV  161 (352)
Q Consensus        92 ~~~-~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~  161 (352)
                      ... ....-.+++ +..+.+.+     .+..=++|||+++  +......++..+.+.+.++.+|++|.+. .+.+. ...
T Consensus        80 ~p~~~~~~I~vdq-iR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SR  158 (319)
T PRK06090         80 KPEKEGKSITVEQ-IRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSR  158 (319)
T ss_pred             ecCcCCCcCCHHH-HHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence            000 000011111 12222222     2345699999997  4456788888888777888777766544 44444 345


Q ss_pred             ccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          162 EEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       162 ~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ...+.+.+++.+++.+.+.+....          ....+...++|.|+....+
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~~~~----------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        159 CQQWVVTPPSTAQAMQWLKGQGIT----------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             ceeEeCCCCCHHHHHHHHHHcCCc----------hHHHHHHHcCCCHHHHHHH
Confidence            678999999999999998765311          1245688899999866544

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.29  E-value=1.3e-05  Score=73.60  Aligned_cols=174  Identities=18%  Similarity=0.209  Sum_probs=101.3

Q ss_pred             cCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ..+=|-+..+++|.+.+..          +-..++-|++|||+|+|||.||+.++.++.-.|     +.    .+.+   
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf-----~~----isAp---  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF-----LS----ISAP---  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce-----Ee----ecch---
Confidence            3456788888888887664          113467799999999999999999998776443     21    1110   


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCCCCC----
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRDWFG----  141 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~~~~----  141 (352)
                            ++....      ...+.+.+-+.+.......+++++||+++.+.             -+..++..+....    
T Consensus       258 ------eivSGv------SGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~  325 (802)
T KOG0733|consen  258 ------EIVSGV------SGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKT  325 (802)
T ss_pred             ------hhhccc------CcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhccccccc
Confidence                  122111      11222333444555556789999999995321             1334444433211    


Q ss_pred             CCc-eEEE--EeCchhHhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          142 LGS-MIII--TTRDEHLLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       142 ~~~-~iii--tsr~~~~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      .+- .+||  |+|.+.+.+.    .++...|.|.--+...-..+|...+.+-.....   -..++|++.+-|+--
T Consensus       326 ~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~---~d~~qlA~lTPGfVG  397 (802)
T KOG0733|consen  326 KGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGD---FDFKQLAKLTPGFVG  397 (802)
T ss_pred             CCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCC---cCHHHHHhcCCCccc
Confidence            112 2333  6676554333    345667888777777777777766543332221   225667777777653

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=4.8e-06  Score=79.80  Aligned_cols=152  Identities=11%  Similarity=0.126  Sum_probs=90.3

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-Cc-----ceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FD-----GSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~   81 (352)
                      -++.+||+.|++++.+.|..+..+-++  ++|++|+|||+++.-+++++-.. .+     ..++-.+++..         
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~L---------  237 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSL---------  237 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHH---------
Confidence            367899999999999999975444344  79999999999999999986433 11     11222111111         


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhC-CceEEEEEeCCCC-----------hhhhhhhhCCCCCCCCCceEEEE
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR-HKKVLLLIDDVAD-----------VEQLRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~llvlDd~~~-----------~~~~~~l~~~~~~~~~~~~iiit  149 (352)
                               ..+ ..-..+.++....+.+.+. ..+++|+||.++.           .+.-.-+.+.+.  ....+.|-.
T Consensus       238 ---------vAG-akyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLA--RGeL~~IGA  305 (786)
T COG0542         238 ---------VAG-AKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALA--RGELRCIGA  305 (786)
T ss_pred             ---------hcc-ccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHh--cCCeEEEEe
Confidence                     111 1112233444444444443 3489999999842           222233333333  223444444


Q ss_pred             eCchhHh-------hhcCcccEEecCCCCHhHHHHHHHhh
Q 045677          150 TRDEHLL-------KLHRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       150 sr~~~~~-------~~~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      |...+.-       ...+.++.+.+..-+.+++..+++-.
T Consensus       306 TT~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         306 TTLDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             ccHHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            4333322       22356778999999999999988754

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.27  E-value=4.7e-06  Score=70.04  Aligned_cols=49  Identities=16%  Similarity=0.160  Sum_probs=33.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +..+.++...-.++...++++|++|+|||+|+..++..+......+.++
T Consensus        85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~i  133 (244)
T PRK07952         85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLII  133 (244)
T ss_pred             HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            4455555543223345788999999999999999999876654444444

>PRK08181 transposase; Validated

Probab=98.27  E-value=6.3e-06  Score=70.35  Aligned_cols=34  Identities=21%  Similarity=0.137  Sum_probs=26.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      .-++|+|++|+|||.|+..+++...+......|+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~  140 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFT  140 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeee
Confidence            4589999999999999999998876554344444

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.26  E-value=3e-05  Score=66.40  Aligned_cols=174  Identities=18%  Similarity=0.199  Sum_probs=100.2

Q ss_pred             CcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC-CcHHHHHH
Q 045677            8 PKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE-GSVISLQK   84 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~   84 (352)
                      -..|+|-..+-+.+.+|+..  ..+....|.|.||.|+|||.|......+ .+.+......+.+.+..... -.+..+..
T Consensus        23 ~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~r  101 (408)
T KOG2228|consen   23 HINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITR  101 (408)
T ss_pred             CcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHH
Confidence            35688999999999998885  2234577899999999999999888877 44455555555554433321 11133333


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhC------CceEEEEEeCCCChh------hhhhhhCCCCC-CCCCceEEEEeC
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLR------HKKVLLLIDDVADVE------QLRGLFGKRDW-FGLGSMIIITTR  151 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~------~~~~llvlDd~~~~~------~~~~l~~~~~~-~~~~~~iiitsr  151 (352)
                      ++..++.... ....+..+....+...++      +.++++|+|+++-..      -+-.++..... ..+-|.|-+|||
T Consensus       102 ql~~e~~~~~-k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttr  180 (408)
T KOG2228|consen  102 QLALELNRIV-KSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTR  180 (408)
T ss_pred             HHHHHHhhhh-eeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecc
Confidence            3333222111 112222333333444443      346899999885321      11122211111 123445668888


Q ss_pred             chh-------HhhhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          152 DEH-------LLKLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       152 ~~~-------~~~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      -+-       +.+.......+.++.++.++..+++++..
T Consensus       181 ld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  181 LDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             ccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            542       23333444567888899999999988776

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

Probab=98.26  E-value=1.4e-05  Score=74.99  Aligned_cols=160  Identities=19%  Similarity=0.204  Sum_probs=89.7

Q ss_pred             CCcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      +..+.+|-+.--+++.++|.-    +.-..++++++||||+|||+|++.++..+.+.|-... ...+++.+.       +
T Consensus       321 Ld~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~s-LGGvrDEAE-------I  392 (782)
T COG0466         321 LDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRIS-LGGVRDEAE-------I  392 (782)
T ss_pred             hcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEe-cCccccHHH-------h
Confidence            345678888888888887763    2334589999999999999999999999988863222 111221111       0


Q ss_pred             HHHHHHHHhcccCCCccchh-hhHHHHHhhhCCceEEEEEeCCCChhh------hhhhhCCCC------------CC-C-
Q 045677           83 QKQLLSDLLMLADNSIRNVY-DGVNMIGSRLRHKKVLLLIDDVADVEQ------LRGLFGKRD------------WF-G-  141 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~llvlDd~~~~~~------~~~l~~~~~------------~~-~-  141 (352)
                              .+....-..... ..++.+ ......+-|++||+++...+      -..++..+.            .. - 
T Consensus       393 --------RGHRRTYIGamPGrIiQ~m-kka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yD  463 (782)
T COG0466         393 --------RGHRRTYIGAMPGKIIQGM-KKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYD  463 (782)
T ss_pred             --------ccccccccccCChHHHHHH-HHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccc
Confidence                    111111011111 111111 22345778999999953211      111111111            00 0 


Q ss_pred             -CCceEEEEeCch--hHhhhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          142 -LGSMIIITTRDE--HLLKLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       142 -~~~~iiitsr~~--~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                       ....+|.|...-  -..+..+.-..++|.+.+.+|-.++-.+++
T Consensus       464 LS~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         464 LSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             hhheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence             123333343322  234445667899999999999998877765

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.25  E-value=5.9e-06  Score=63.56  Aligned_cols=28  Identities=39%  Similarity=0.328  Sum_probs=24.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +.+.|+|++|+|||+++..++..+....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            5789999999999999999998876654

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.

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

Probab=98.25  E-value=4.5e-05  Score=61.93  Aligned_cols=58  Identities=21%  Similarity=0.316  Sum_probs=44.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCCCccee
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHEFDGSS   64 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~~~~~~   64 (352)
                      |..-.+.||-+..++.|.-.-.  +++.+-+.|.||||+||||=+..+++.+ ...|...+
T Consensus        23 P~~l~dIVGNe~tv~rl~via~--~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~v   81 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAK--EGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAV   81 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHH--cCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHh
Confidence            3344678999999999988777  5566788899999999999998888875 33344333

>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=98.23  E-value=1.7e-05  Score=62.64  Aligned_cols=146  Identities=18%  Similarity=0.179  Sum_probs=75.0

Q ss_pred             cccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHh-
Q 045677           13 GMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLL-   91 (352)
Q Consensus        13 GR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-   91 (352)
                      |-+...+.|.+.+..+ .-++.++++|+.|+||+++|..+++.+-...........           -..+..+..... 
T Consensus         1 gq~~~~~~L~~~~~~~-~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~-----------c~~c~~~~~~~~~   68 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGE-----------CRSCRRIEEGNHP   68 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SS-----------SHHHHHHHTT-CT
T ss_pred             CcHHHHHHHHHHHHcC-CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCC-----------CHHHHHHHhccCc
Confidence            5566777888877743 235678999999999999999999875322111000000           011111110000 


Q ss_pred             ---cccCCC---ccchhhhHHHHHhhh-----CCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCchh-Hhh
Q 045677           92 ---MLADNS---IRNVYDGVNMIGSRL-----RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDEH-LLK  157 (352)
Q Consensus        92 ---~~~~~~---~~~~~~~~~~~~~~l-----~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~  157 (352)
                         ......   .-..++ +..+...+     .+..=++|||+++  +.+....++..+.+.+.++.+|++|.+.. +.+
T Consensus        69 d~~~~~~~~~~~~i~i~~-ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~  147 (162)
T PF13177_consen   69 DFIIIKPDKKKKSIKIDQ-IREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILP  147 (162)
T ss_dssp             TEEEEETTTSSSSBSHHH-HHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-H
T ss_pred             ceEEEecccccchhhHHH-HHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChH
Confidence               000000   011122 22232222     2345699999997  45567778777777778899888887653 333


Q ss_pred             h-cCcccEEecCCCC
Q 045677          158 L-HRVEEVYKLEALN  171 (352)
Q Consensus       158 ~-~~~~~~~~l~~l~  171 (352)
                      . ......+.++++|
T Consensus       148 TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  148 TIRSRCQVIRFRPLS  162 (162)
T ss_dssp             HHHTTSEEEEE----
T ss_pred             HHHhhceEEecCCCC
Confidence            2 3445667777664

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.23  E-value=4.3e-05  Score=75.40  Aligned_cols=179  Identities=13%  Similarity=0.139  Sum_probs=96.4

Q ss_pred             CcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677           10 ELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      .+.|-+...+.|.+.+.-           +-..++-++++||+|+|||++|+.++......|    +....         
T Consensus       454 di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f----i~v~~---------  520 (733)
T TIGR01243       454 DIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF----IAVRG---------  520 (733)
T ss_pred             hcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE----EEEeh---------
Confidence            356766666666665431           112345689999999999999999998865432    11111         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh--------------hhhhhhCCCCC--CCC
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE--------------QLRGLFGKRDW--FGL  142 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~--------------~~~~l~~~~~~--~~~  142 (352)
                       .    .+...+.+.      ....+...+.......+.+|+||+++...              .+..++..+..  ...
T Consensus       521 -~----~l~~~~vGe------se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~  589 (733)
T TIGR01243       521 -P----EILSKWVGE------SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELS  589 (733)
T ss_pred             -H----HHhhcccCc------HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCC
Confidence             0    111111110      11112223333345678999999985321              12334333331  123


Q ss_pred             CceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhHHHHH
Q 045677          143 GSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAVDVLV  215 (352)
Q Consensus       143 ~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i~~~~  215 (352)
                      +..||.||.... +.+.    .++...+.++..+.++-.++++..........   ...+..+++.|.|+- ..|..++
T Consensus       590 ~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~---~~~l~~la~~t~g~sgadi~~~~  665 (733)
T TIGR01243       590 NVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAE---DVDLEELAEMTEGYTGADIEAVC  665 (733)
T ss_pred             CEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCc---cCCHHHHHHHcCCCCHHHHHHHH
Confidence            444555554332 2111    24567888999998888888876543221111   122567888888764 3344443

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.23  E-value=3.1e-05  Score=76.33  Aligned_cols=173  Identities=16%  Similarity=0.166  Sum_probs=94.7

Q ss_pred             CcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677           10 ELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      .+.|.+..++.+.+.+..           +-...+.++|+|++|+|||+|++.++......+    +..+....      
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~----i~i~~~~i------  248 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF----ISINGPEI------  248 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE----EEEecHHH------
Confidence            478999999998887642           112346789999999999999999998765432    11111110      


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCCCC-CCCc
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRDWF-GLGS  144 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~~~-~~~~  144 (352)
                              .....      ......+...+.......+.+|+||+++...             ....++..+... ..+.
T Consensus       249 --------~~~~~------g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~  314 (733)
T TIGR01243       249 --------MSKYY------GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGR  314 (733)
T ss_pred             --------hcccc------cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCC
Confidence                    00000      0011112223333345677899999985321             123333333221 2233


Q ss_pred             eEEE-EeCch-hHhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          145 MIII-TTRDE-HLLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       145 ~iii-tsr~~-~~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      .+|| +|... .+.+.    .++...+.++..+.++..+++..........   .......+++.+.|+.-
T Consensus       315 vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~---~d~~l~~la~~t~G~~g  382 (733)
T TIGR01243       315 VIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLA---EDVDLDKLAEVTHGFVG  382 (733)
T ss_pred             EEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCc---cccCHHHHHHhCCCCCH
Confidence            3444 44322 22111    2345678888888888888887554222111   11235678888888654

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=3.9e-05  Score=71.81  Aligned_cols=164  Identities=15%  Similarity=0.109  Sum_probs=89.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ....+.|.|+.|+|||+|++.++..+..+..+.+-++++...... . +..+..                  .+...+..
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~-~-~e~iQk------------------~l~~vfse  489 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGS-S-LEKIQK------------------FLNNVFSE  489 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccch-h-HHHHHH------------------HHHHHHHH
Confidence            356789999999999999999999876554333333322211111 0 111111                  11233455


Q ss_pred             hhCCceEEEEEeCCCChhh---------------hhhhh----CCCCCCCCCceEEEEeCc-----hhHhhhcCcccEEe
Q 045677          111 RLRHKKVLLLIDDVADVEQ---------------LRGLF----GKRDWFGLGSMIIITTRD-----EHLLKLHRVEEVYK  166 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~---------------~~~l~----~~~~~~~~~~~iiitsr~-----~~~~~~~~~~~~~~  166 (352)
                      ++...|-+|||||++....               +..++    ..+........+|.|...     +.+.....+.....
T Consensus       490 ~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~  569 (952)
T KOG0735|consen  490 ALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIA  569 (952)
T ss_pred             HHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEe
Confidence            6677899999999942111               11221    111111122233444432     12222233456789


Q ss_pred             cCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC-chhHHHHHH
Q 045677          167 LEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL-PLAVDVLVS  216 (352)
Q Consensus       167 l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Pl~i~~~~~  216 (352)
                      |+++...+-..++....... . .....+.++-+..+|+|+ |.-++.+..
T Consensus       570 L~ap~~~~R~~IL~~~~s~~-~-~~~~~~dLd~ls~~TEGy~~~DL~ifVe  618 (952)
T KOG0735|consen  570 LPAPAVTRRKEILTTIFSKN-L-SDITMDDLDFLSVKTEGYLATDLVIFVE  618 (952)
T ss_pred             cCCcchhHHHHHHHHHHHhh-h-hhhhhHHHHHHHHhcCCccchhHHHHHH
Confidence            99999998888887655221 1 122345566688888885 455555443

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

Probab=98.22  E-value=1.8e-06  Score=72.81  Aligned_cols=92  Identities=15%  Similarity=0.100  Sum_probs=54.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCcc-----chhhhH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIR-----NVYDGV  105 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-----~~~~~~  105 (352)
                      ...+.|.|++|+|||||++.+++.... +|+..+|++..++..   ....++...+...+.......+.     -.....
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~---~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERP---EEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCC---ccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            366889999999999999999988654 567777876443321   12356666653222222222111     111122


Q ss_pred             HHHHhh-hCCceEEEEEeCCCC
Q 045677          106 NMIGSR-LRHKKVLLLIDDVAD  126 (352)
Q Consensus       106 ~~~~~~-l~~~~~llvlDd~~~  126 (352)
                      ...... ..++++++++|++..
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHH
Confidence            222222 247899999999943

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.

>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=98.22  E-value=0.00015  Score=64.53  Aligned_cols=77  Identities=16%  Similarity=0.203  Sum_probs=52.3

Q ss_pred             ccHHHHHHHHHHhcCC-CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEeeeccccccCCCcHHHHHHHHHHHH
Q 045677           14 MESRLEKLKFLMCTGS-NDVRTIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLADVRERCDKEGSVISLQKQLLSDL   90 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~-~~~~~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   90 (352)
                      |+.-.+.|.+.+...+ ..+.++.|.|+=|+|||++++.+.+.+...  ....+...+.+........+..++..+...+
T Consensus         1 ~~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l   80 (325)
T PF07693_consen    1 RKPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL   80 (325)
T ss_pred             ChHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence            3445677778777643 567889999999999999999999998777  2233333345445544555566666665544

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 [].

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.17  E-value=5.7e-05  Score=67.18  Aligned_cols=161  Identities=17%  Similarity=0.159  Sum_probs=87.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHH
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSD   89 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (352)
                      .++|-+.....+..+.......++.++++||+|+|||++|..+++.+........-.+..          ...+..+...
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~----------~~~~~~~~~~   71 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGH----------CRSCKLIPAG   71 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccc----------hhhhhHHhhc
Confidence            467888888999998885444556799999999999999999998864332100000000          0000000000


Q ss_pred             H----hcccCCCccc---hhhhHHHHHhhh-----CCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-h
Q 045677           90 L----LMLADNSIRN---VYDGVNMIGSRL-----RHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-H  154 (352)
Q Consensus        90 ~----~~~~~~~~~~---~~~~~~~~~~~l-----~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~  154 (352)
                      .    ....+.+...   ..+.+..+.+..     .+..-+++||+++..  +.-..++..+...+.+..+|+++... .
T Consensus        72 ~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~  151 (325)
T COG0470          72 NHPDFLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSK  151 (325)
T ss_pred             CCCceEEecccccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhh
Confidence            0    0000000000   111122222211     245679999999754  44666666666667778877777633 3


Q ss_pred             Hhhh-cCcccEEecCCCCHhHHHHHHH
Q 045677          155 LLKL-HRVEEVYKLEALNFDEAFRLFC  180 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~l~~~e~~~ll~  180 (352)
                      +.+. ...+..+++.+.+..+......
T Consensus       152 il~tI~SRc~~i~f~~~~~~~~i~~~e  178 (325)
T COG0470         152 ILPTIRSRCQRIRFKPPSRLEAIAWLE  178 (325)
T ss_pred             ccchhhhcceeeecCCchHHHHHHHhh
Confidence            3332 2445677887755554444433

>PRK12377 putative replication protein; Provisional

Probab=98.17  E-value=1e-05  Score=68.26  Aligned_cols=36  Identities=17%  Similarity=0.144  Sum_probs=28.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...+.|+|++|+|||+||..+++.+......+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            357889999999999999999999876544444443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.16  E-value=1.8e-05  Score=72.14  Aligned_cols=48  Identities=17%  Similarity=0.220  Sum_probs=40.9

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ....++||+..++.+...+..+    ..|+|.|++|+|||++|+.+......
T Consensus        18 l~~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         18 LEKGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             HhhhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhcc
Confidence            3567999999999998888754    45889999999999999999987654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.15  E-value=7.8e-05  Score=74.17  Aligned_cols=52  Identities=21%  Similarity=0.317  Sum_probs=40.3

Q ss_pred             CCcCcccccHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +....+|.+..++.+.+.+..       .+....+++++||+|+|||.||+.++..+-.
T Consensus       564 L~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       564 LAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             hcCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            345789999999999888753       1122346889999999999999999888643

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.15  E-value=9e-05  Score=63.60  Aligned_cols=37  Identities=24%  Similarity=0.184  Sum_probs=27.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++.+..++..    .+.++|.|++|+|||++|..+++....
T Consensus        11 ~~~~l~~l~~----g~~vLL~G~~GtGKT~lA~~la~~lg~   47 (262)
T TIGR02640        11 TSRALRYLKS----GYPVHLRGPAGTGKTTLAMHVARKRDR   47 (262)
T ss_pred             HHHHHHHHhc----CCeEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            3444455542    256789999999999999999986643

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).

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.14  E-value=3.2e-06  Score=67.84  Aligned_cols=36  Identities=22%  Similarity=0.247  Sum_probs=26.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..-++++|++|+|||.||..+++.+..+...+.|+.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            466899999999999999999988765544445443

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.13  E-value=6.4e-06  Score=72.48  Aligned_cols=35  Identities=17%  Similarity=0.240  Sum_probs=28.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..++++|++|+|||+|+..+++.+......++|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            67999999999999999999998766544455554

>TIGR00763 lon ATP-dependent protease La

Probab=98.12  E-value=3e-05  Score=76.68  Aligned_cols=53  Identities=19%  Similarity=0.367  Sum_probs=40.6

Q ss_pred             CcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ....+|.+...+.+.+++..    .....+.++++||+|+|||++|+.++..+...|
T Consensus       319 ~~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       319 DEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            34578888888888876542    223346789999999999999999999886553

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.

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

Probab=98.10  E-value=8.5e-05  Score=73.14  Aligned_cols=50  Identities=20%  Similarity=0.325  Sum_probs=39.1

Q ss_pred             CcCcccccHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            8 PKELVGMESRLEKLKFLMCTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....+|.+..++.+.+.+...       ......++++||+|+|||.||+.++..+.
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            456789999999988877731       11234578999999999999999998874

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.10  E-value=7.9e-06  Score=72.31  Aligned_cols=91  Identities=14%  Similarity=0.109  Sum_probs=53.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchh-----hhH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVY-----DGV  105 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-----~~~  105 (352)
                      .+-.+|+|++|+|||||++++++.+.. +|+..+|+...+....   .+.++...+...............+     ...
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~---EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~i  245 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPE---EVTDMQRSVKGEVVASTFDEPAERHVQVAEMVI  245 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchh---HHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHH
Confidence            356779999999999999999998654 6888888875544321   1244554444221212222111111     111


Q ss_pred             HHHHhh-hCCceEEEEEeCCC
Q 045677          106 NMIGSR-LRHKKVLLLIDDVA  125 (352)
Q Consensus       106 ~~~~~~-l~~~~~llvlDd~~  125 (352)
                      ...... ..+++++|++|++.
T Consensus       246 e~Ae~~~e~G~dVlL~iDsIt  266 (416)
T PRK09376        246 EKAKRLVEHGKDVVILLDSIT  266 (416)
T ss_pred             HHHHHHHHcCCCEEEEEEChH
Confidence            111111 25789999999994

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=3e-06  Score=71.81  Aligned_cols=80  Identities=23%  Similarity=0.323  Sum_probs=47.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc----CCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS----HEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNM  107 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (352)
                      -|+++++||||+|||+|++.+++++.    ..|.....+.    .+         ...+.+.+...+.   ..+....+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----in---------shsLFSKWFsESg---KlV~kmF~k  240 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----IN---------SHSLFSKWFSESG---KLVAKMFQK  240 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----Ee---------hhHHHHHHHhhhh---hHHHHHHHH
Confidence            58999999999999999999999853    3344444332    11         1123333332222   223344445


Q ss_pred             HHhhhCCce--EEEEEeCCCCh
Q 045677          108 IGSRLRHKK--VLLLIDDVADV  127 (352)
Q Consensus       108 ~~~~l~~~~--~llvlDd~~~~  127 (352)
                      +.+...+++  +++.||+|++.
T Consensus       241 I~ELv~d~~~lVfvLIDEVESL  262 (423)
T KOG0744|consen  241 IQELVEDRGNLVFVLIDEVESL  262 (423)
T ss_pred             HHHHHhCCCcEEEEEeHHHHHH
Confidence            555555443  56678998653

>PRK10536 hypothetical protein; Provisional

Probab=98.09  E-value=0.0001  Score=61.74  Aligned_cols=43  Identities=14%  Similarity=0.044  Sum_probs=36.8

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+.+|......+..++..    ..+|+++|++|+|||+||..++.+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHH
Confidence            5567899999999998874    259999999999999999998875

>PRK04132 replication factor C small subunit; Provisional

Probab=98.07  E-value=0.00069  Score=66.61  Aligned_cols=160  Identities=10%  Similarity=0.080  Sum_probs=97.6

Q ss_pred             EEc--CCCCcHHHHHHHHHHHh-cCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC
Q 045677           37 IWG--MGGLGKTTLARVVYDLM-SHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR  113 (352)
Q Consensus        37 I~G--~~GiGKT~La~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  113 (352)
                      +.|  |.++||||+|..+++++ ...+...+.-.++.+..    - .+.++.++..+....+..               .
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~r----g-id~IR~iIk~~a~~~~~~---------------~  628 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDER----G-INVIREKVKEFARTKPIG---------------G  628 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcc----c-HHHHHHHHHHHHhcCCcC---------------C
Confidence            457  89999999999999886 33333344444332211    1 233344433322111100               1


Q ss_pred             CceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCC
Q 045677          114 HKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKP  189 (352)
Q Consensus       114 ~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~  189 (352)
                      .+.-++|||+++..  ++...++..+...+..+++|+++.+. .+.+. ...+..+++.+++.++....+...+......
T Consensus       629 ~~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~  708 (846)
T PRK04132        629 ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE  708 (846)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC
Confidence            23469999999754  45667777766556677777766544 33222 3456789999999999988887665321111


Q ss_pred             chhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          190 LEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       190 ~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                        ..++.+..|+..++|.+.....+...+
T Consensus       709 --i~~e~L~~Ia~~s~GDlR~AIn~Lq~~  735 (846)
T PRK04132        709 --LTEEGLQAILYIAEGDMRRAINILQAA  735 (846)
T ss_pred             --CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence              234678899999999997665544443

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.07  E-value=0.00016  Score=63.74  Aligned_cols=86  Identities=15%  Similarity=0.153  Sum_probs=51.9

Q ss_pred             ceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-cCcccEEecCCCCHhHHHHHHHhhhcCCCCCc
Q 045677          115 KKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPL  190 (352)
Q Consensus       115 ~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~  190 (352)
                      ++-++|+|+++.  ...-..++..+.....++.+|++|.+. .+.+. ......+.+.+++.+++.+.+.+...    ..
T Consensus       113 ~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~~----~~  188 (325)
T PRK08699        113 GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERGV----AE  188 (325)
T ss_pred             CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcCC----Cc
Confidence            444667788863  344555555544434556677766654 33333 34567889999999999998876421    11


Q ss_pred             hhHHHHHHHHHHHcCCCchh
Q 045677          191 EEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       191 ~~~~~~~~~i~~~~~G~Pl~  210 (352)
                       . ..    ....++|.|+.
T Consensus       189 -~-~~----~l~~~~g~p~~  202 (325)
T PRK08699        189 -P-EE----RLAFHSGAPLF  202 (325)
T ss_pred             -H-HH----HHHHhCCChhh
Confidence             1 11    23567899954

>PRK06526 transposase; Provisional

Probab=98.06  E-value=7.2e-06  Score=69.60  Aligned_cols=29  Identities=24%  Similarity=0.084  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+-++|+|++|+|||+||..+.....+..
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g  126 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAG  126 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCC
Confidence            35689999999999999999988865543

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.06  E-value=5e-05  Score=71.72  Aligned_cols=47  Identities=32%  Similarity=0.572  Sum_probs=38.4

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.++|.+..++.+...+..  .....++|+|++|+|||++|+.+.+..+
T Consensus        65 ~~iiGqs~~i~~l~~al~~--~~~~~vLi~Ge~GtGKt~lAr~i~~~~~  111 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCG--PNPQHVIIYGPPGVGKTAAARLVLEEAK  111 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            3589999999999987763  3346678999999999999999987543

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=98.06  E-value=0.00028  Score=62.01  Aligned_cols=30  Identities=33%  Similarity=0.568  Sum_probs=26.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++.+.||||+|+|||.+|+.++..+...
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            456889999999999999999999987654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.05  E-value=0.00024  Score=71.21  Aligned_cols=53  Identities=19%  Similarity=0.368  Sum_probs=41.8

Q ss_pred             CCcCcccccHHHHHHHHHHhcCC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGS-------NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +...++|.+..++.+...+....       .....++++||+|+|||++|+.++..+...
T Consensus       563 l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~  622 (852)
T TIGR03346       563 LHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD  622 (852)
T ss_pred             hhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            34578999999999999887411       123568899999999999999999886544

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.05  E-value=0.00016  Score=72.25  Aligned_cols=52  Identities=17%  Similarity=0.342  Sum_probs=40.0

Q ss_pred             CcCcccccHHHHHHHHHHhcC-----CCC--eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            8 PKELVGMESRLEKLKFLMCTG-----SND--VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-----~~~--~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++|.+..++.+...+...     .++  ...++++||+|+|||++|+.++..+...
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~  625 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS  625 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC
Confidence            456899999999998887641     111  2468899999999999999999876433

>TIGR00767 rho transcription termination factor Rho

Probab=98.04  E-value=9.6e-06  Score=72.10  Aligned_cols=93  Identities=14%  Similarity=0.116  Sum_probs=56.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccch-----hhh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNV-----YDG  104 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----~~~  104 (352)
                      ..+.++|+|++|+|||||+..+++.+... |+..+|+...++.   ...+.++.+.+...........+...     ...
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER---~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER---PEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC---CccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            34678999999999999999999987555 7777777644332   12236666666433322222221111     111


Q ss_pred             HHHHHhh-hCCceEEEEEeCCCC
Q 045677          105 VNMIGSR-LRHKKVLLLIDDVAD  126 (352)
Q Consensus       105 ~~~~~~~-l~~~~~llvlDd~~~  126 (352)
                      ....... ..+++++|++|++..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhH
Confidence            1112222 257899999999953

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

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

Probab=98.04  E-value=0.00016  Score=65.61  Aligned_cols=131  Identities=15%  Similarity=0.136  Sum_probs=72.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIG  109 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (352)
                      ++...|++.|++|+|||+||.+++..-  .|+.+-.++ ..+   -.++                 .+..........+.
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S--~FPFvKiiS-pe~---miG~-----------------sEsaKc~~i~k~F~  592 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSS--DFPFVKIIS-PED---MIGL-----------------SESAKCAHIKKIFE  592 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhc--CCCeEEEeC-hHH---ccCc-----------------cHHHHHHHHHHHHH
Confidence            455678899999999999999998653  344333332 100   0000                 11111122223344


Q ss_pred             hhhCCceEEEEEeCCCChhhh---------------hhhhCCCCCCCCCceEEEEeCchhHhhhc----CcccEEecCCC
Q 045677          110 SRLRHKKVLLLIDDVADVEQL---------------RGLFGKRDWFGLGSMIIITTRDEHLLKLH----RVEEVYKLEAL  170 (352)
Q Consensus       110 ~~l~~~~~llvlDd~~~~~~~---------------~~l~~~~~~~~~~~~iiitsr~~~~~~~~----~~~~~~~l~~l  170 (352)
                      +..+..=-+||+||++..-+|               .-++...+..++..-|+-||....++..+    .+...+.++.+
T Consensus       593 DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl  672 (744)
T KOG0741|consen  593 DAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNL  672 (744)
T ss_pred             HhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCcc
Confidence            444555569999999543322               22233323112233344455555555554    35568999999


Q ss_pred             CH-hHHHHHHHhhh
Q 045677          171 NF-DEAFRLFCLKA  183 (352)
Q Consensus       171 ~~-~e~~~ll~~~~  183 (352)
                      +. ++....+.+.-
T Consensus       673 ~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  673 TTGEQLLEVLEELN  686 (744)
T ss_pred             CchHHHHHHHHHcc
Confidence            88 66777776654

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.04  E-value=0.00012  Score=64.77  Aligned_cols=47  Identities=21%  Similarity=0.160  Sum_probs=38.3

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +||+...++++.+.+..-......|+|+|++|+||+++|+.+...-.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~   47 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSK   47 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcC
Confidence            58899999988888876444456789999999999999998876543

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

>PRK09183 transposase/IS protein; Provisional

Probab=98.03  E-value=1.8e-05  Score=67.65  Aligned_cols=27  Identities=30%  Similarity=0.297  Sum_probs=22.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|+|++|+|||+|+..++......
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~  129 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRA  129 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            568899999999999999998775444

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.03  E-value=1.5e-05  Score=67.77  Aligned_cols=29  Identities=24%  Similarity=0.298  Sum_probs=25.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +..-++++|++|+|||.||..+.+++.+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~  132 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKA  132 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            44668999999999999999999998844

>PRK06921 hypothetical protein; Provisional

Probab=98.03  E-value=8.1e-06  Score=69.90  Aligned_cols=37  Identities=19%  Similarity=0.224  Sum_probs=28.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      ....++++|++|+|||+|+..+++.+.+. ...++|+.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            34678999999999999999999987655 33444443

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.02  E-value=0.00012  Score=69.67  Aligned_cols=52  Identities=15%  Similarity=0.201  Sum_probs=42.5

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .-..++|+...++++.+.+..-......|+|+|++|+|||++|+.+.+....
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r  245 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR  245 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC
Confidence            3457899999999999988764444567899999999999999999876543

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.

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

Probab=98.01  E-value=5.8e-05  Score=70.77  Aligned_cols=53  Identities=25%  Similarity=0.431  Sum_probs=43.9

Q ss_pred             CcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ..+.+|-+.--+++.+++.-    ++.+.++++++||+|+|||++++.++..+.+.|
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF  466 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF  466 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce
Confidence            45567888878888887763    445679999999999999999999999988775

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.00  E-value=3e-05  Score=67.74  Aligned_cols=54  Identities=17%  Similarity=0.167  Sum_probs=37.1

Q ss_pred             cccHHHHHHHHHHhcCC--CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           13 GMESRLEKLKFLMCTGS--NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        13 GR~~~l~~l~~~l~~~~--~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +|...++...+++..-.  ...+-+.|+|++|+|||.|+..+++.+......+.|+
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~  190 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLL  190 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence            45455555566666311  2346789999999999999999999986554444444

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.00  E-value=0.00026  Score=62.16  Aligned_cols=48  Identities=15%  Similarity=0.043  Sum_probs=34.2

Q ss_pred             EEecCCCCHhHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHHcCCCchhH
Q 045677          164 VYKLEALNFDEAFRLFCLKAFDTYKPL-EEYLELAKCFVKYASGLPLAV  211 (352)
Q Consensus       164 ~~~l~~l~~~e~~~ll~~~~~~~~~~~-~~~~~~~~~i~~~~~G~Pl~i  211 (352)
                      .+++++++.+|+..+++-.....-... ...+...+++...++|||.-+
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            789999999999999886552222211 234566777777889999754

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).

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.99  E-value=0.00016  Score=59.07  Aligned_cols=54  Identities=22%  Similarity=0.334  Sum_probs=41.4

Q ss_pred             cCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcc
Q 045677            9 KELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDG   62 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~   62 (352)
                      ..++|-+...+.|.+.-..  .+-...-|++||.-|+|||+|++.+...+...+..
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            4578888888888764442  23345679999999999999999999988776544

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

Probab=97.98  E-value=3.2e-05  Score=69.95  Aligned_cols=46  Identities=26%  Similarity=0.309  Sum_probs=38.3

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+.++.+..++.+...+..+    +.+.++|++|+|||++|+.++..+..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            45778888999998888843    56888999999999999999988754

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

Probab=97.98  E-value=5.4e-05  Score=62.53  Aligned_cols=172  Identities=16%  Similarity=0.216  Sum_probs=94.2

Q ss_pred             cCcccccHHHH---HHHHHHhcCC----CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            9 KELVGMESRLE---KLKFLMCTGS----NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         9 ~~~vGR~~~l~---~l~~~l~~~~----~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      ++.||.+..-+   -+.+.|.+..    =.++-|+.+||+|+|||-+|+.++...+-.+    ..+.+          . 
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~----l~vka----------t-  185 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL----LLVKA----------T-  185 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce----EEech----------H-
Confidence            34577765554   3455666421    2368899999999999999999997755332    11110          0 


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--------------hhhhhhhCCCCCC--CCCce
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--------------EQLRGLFGKRDWF--GLGSM  145 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--------------~~~~~l~~~~~~~--~~~~~  145 (352)
                         +++-...+   ...   ...-+.....-...++++.||+++..              +.+..++..+...  +.|.+
T Consensus       186 ---~liGehVG---dga---r~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         186 ---ELIGEHVG---DGA---RRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             ---HHHHHHhh---hHH---HHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence               11111111   001   11112222333457999999998532              2245555555422  34555


Q ss_pred             EEEEeCchhHhhh---cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC
Q 045677          146 IIITTRDEHLLKL---HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL  207 (352)
Q Consensus       146 iiitsr~~~~~~~---~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~  207 (352)
                      .|.+|.+..++..   .++...++..--+.+|-..+++..+.. .+.+  .....+.++.+++|.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~-~Plp--v~~~~~~~~~~t~g~  318 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKK-FPLP--VDADLRYLAAKTKGM  318 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHh-CCCc--cccCHHHHHHHhCCC
Confidence            5555554443322   244556777777888888888776621 1111  113366777777775

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=7.3e-05  Score=69.53  Aligned_cols=153  Identities=15%  Similarity=0.204  Sum_probs=88.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIG  109 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (352)
                      +.++-|+++||||+|||++|+.++..-.-.|-.+   .         +      .++...+.+.+.      ..+-+.+.
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsv---k---------g------pEL~sk~vGeSE------r~ir~iF~  521 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSV---K---------G------PELFSKYVGESE------RAIREVFR  521 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCCeeec---c---------C------HHHHHHhcCchH------HHHHHHHH
Confidence            5678899999999999999999998866554211   0         0      123333222211      12223334


Q ss_pred             hhhCCceEEEEEeCCCChhh-------------hhhhhCCCCCCCCCce-EEE--EeCchhH----hhhcCcccEEecCC
Q 045677          110 SRLRHKKVLLLIDDVADVEQ-------------LRGLFGKRDWFGLGSM-III--TTRDEHL----LKLHRVEEVYKLEA  169 (352)
Q Consensus       110 ~~l~~~~~llvlDd~~~~~~-------------~~~l~~~~~~~~~~~~-iii--tsr~~~~----~~~~~~~~~~~l~~  169 (352)
                      +.-+-.+.++.||+++....             +..++..+.-...... +||  |.|.+.+    ....+....+.++.
T Consensus       522 kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVpl  601 (693)
T KOG0730|consen  522 KARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPL  601 (693)
T ss_pred             HHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecC
Confidence            44455789999999964321             3344444432222222 333  4554433    22234677888877


Q ss_pred             CCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          170 LNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       170 l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      =+.+.-.++|+.+...- ...+.  -.+++++++++|+--
T Consensus       602 PD~~aR~~Ilk~~~kkm-p~~~~--vdl~~La~~T~g~SG  638 (693)
T KOG0730|consen  602 PDLEARLEILKQCAKKM-PFSED--VDLEELAQATEGYSG  638 (693)
T ss_pred             ccHHHHHHHHHHHHhcC-CCCcc--ccHHHHHHHhccCCh
Confidence            77777788888777332 22211  346788888888754

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.97  E-value=9.3e-05  Score=65.46  Aligned_cols=103  Identities=11%  Similarity=0.076  Sum_probs=57.7

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS   97 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   97 (352)
                      ..+.+.+..-. ..+-+.|+|++|+|||||+..+++.+.... +..+++..+   ......+.++.+.+...+.......
T Consensus       121 ~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lI---gER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        121 MRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLI---DERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             HhhhhheeecC-CCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEe---cCCCCCHHHHHHHHhhhEEeecCCC
Confidence            34566555432 234568999999999999999999876543 332333333   2333333566666655443322222


Q ss_pred             ccch----h-hhHHHHHhhh-CCceEEEEEeCCC
Q 045677           98 IRNV----Y-DGVNMIGSRL-RHKKVLLLIDDVA  125 (352)
Q Consensus        98 ~~~~----~-~~~~~~~~~l-~~~~~llvlDd~~  125 (352)
                      ....    . ........+. .+++++||+|++.
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            1111    1 1111111111 4789999999994

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

Probab=97.97  E-value=5.4e-05  Score=74.44  Aligned_cols=53  Identities=15%  Similarity=0.281  Sum_probs=41.8

Q ss_pred             CcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ....+|-+...+.+.+++..    ......+++++||+|+|||++++.++..+...|
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~  377 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKY  377 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            45678988888888887773    122456899999999999999999998876553

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.97  E-value=1.4e-05  Score=70.32  Aligned_cols=55  Identities=16%  Similarity=0.231  Sum_probs=45.3

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC----CCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG----SNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~----~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++...+.++|-+..++++.+++...    +...++++|+||+|+||||||..++..+..
T Consensus        46 y~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       46 YRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             ccccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3444558999999999999998862    234688999999999999999999988755

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

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.96  E-value=7.3e-06  Score=63.03  Aligned_cols=47  Identities=23%  Similarity=0.289  Sum_probs=35.4

Q ss_pred             ccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           12 VGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ||+...++++.+.+..-......|+|+|++|+||+.+|+.+...-..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~   47 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGR   47 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCc
Confidence            68888899998888764344567899999999999999987765443

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

Probab=97.95  E-value=0.00014  Score=71.14  Aligned_cols=50  Identities=18%  Similarity=0.216  Sum_probs=39.7

Q ss_pred             CcCcccccHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            8 PKELVGMESRLEKLKFLMCTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|.+..++.|.+.+...       +.....++++||+|+|||.+|+.++..+.
T Consensus       457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            456799999999998887731       12234688999999999999999998874

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=0.00028  Score=59.55  Aligned_cols=173  Identities=19%  Similarity=0.175  Sum_probs=92.6

Q ss_pred             CcccccHHHHHHHHHHh----------cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677           10 ELVGMESRLEKLKFLMC----------TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~----------~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      ..-|-+..-+.|.+..-          .+...-+-++++||+|+|||.||+.++-+...     .|++    .++     
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-----TFFS----vSS-----  199 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-----TFFS----VSS-----  199 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCC-----ceEE----eeh-----
Confidence            34566666666655332          23334577999999999999999999976442     2332    111     


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCCh---------hhhh----hhhCCCC---CCCC
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV---------EQLR----GLFGKRD---WFGL  142 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~---------~~~~----~l~~~~~---~~~~  142 (352)
                      .    .+.+.+.+.+       +.++..+.+. -.+++-+|+||+++..         +..+    +++-...   ....
T Consensus       200 S----DLvSKWmGES-------EkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~  268 (439)
T KOG0739|consen  200 S----DLVSKWMGES-------EKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDND  268 (439)
T ss_pred             H----HHHHHHhccH-------HHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCC
Confidence            1    2333333322       2233333332 3568999999999532         1122    2222211   1123


Q ss_pred             CceEEEEeCchhHhhh---cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          143 GSMIIITTRDEHLLKL---HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       143 ~~~iiitsr~~~~~~~---~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      +..++=.|..+-++..   -++...+.+ ||+...++.-..+...+. .+....+...+.+..+++|+--
T Consensus       269 gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~-tp~~LT~~d~~eL~~kTeGySG  336 (439)
T KOG0739|consen  269 GVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGD-TPHVLTEQDFKELARKTEGYSG  336 (439)
T ss_pred             ceEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCC-CccccchhhHHHHHhhcCCCCc
Confidence            3334334443322222   133445655 666666766555555343 3334455678889999988753

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=8.1e-05  Score=71.61  Aligned_cols=130  Identities=17%  Similarity=0.215  Sum_probs=77.5

Q ss_pred             CcCcccccHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHH
Q 045677            8 PKELVGMESRLEKLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (352)
                      ....+|.+..+..+.+.+..       .+.+....++.||+|||||.||++++..+-..-...+-+. ++         .
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~D-MS---------E  559 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRID-MS---------E  559 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeec-hH---------H
Confidence            45678999999999888774       2223456778999999999999999988754433333332 21         1


Q ss_pred             HHHHHHHHHHhcccCCC--ccchhhhHHHHHhhhCCceE-EEEEeCCCC--hhhhhhhhCCCCCC-----------CCCc
Q 045677           81 SLQKQLLSDLLMLADNS--IRNVYDGVNMIGSRLRHKKV-LLLIDDVAD--VEQLRGLFGKRDWF-----------GLGS  144 (352)
Q Consensus        81 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~-llvlDd~~~--~~~~~~l~~~~~~~-----------~~~~  144 (352)
                      ..-+.-.+.+.+.++.-  -.....    +-+....+|+ +|.||+++.  .+-++-|+..+...           ..++
T Consensus       560 y~EkHsVSrLIGaPPGYVGyeeGG~----LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNt  635 (786)
T COG0542         560 YMEKHSVSRLIGAPPGYVGYEEGGQ----LTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNT  635 (786)
T ss_pred             HHHHHHHHHHhCCCCCCceeccccc----hhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEeccee
Confidence            22233444444433321  122222    3333445655 899999963  44456666555432           1255


Q ss_pred             eEEEEeC
Q 045677          145 MIIITTR  151 (352)
Q Consensus       145 ~iiitsr  151 (352)
                      .||+||.
T Consensus       636 iIImTSN  642 (786)
T COG0542         636 IIIMTSN  642 (786)
T ss_pred             EEEEecc
Confidence            5677775

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.93  E-value=4.8e-05  Score=63.81  Aligned_cols=48  Identities=19%  Similarity=0.169  Sum_probs=34.9

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|-+.|..+-....++.|+|++|+|||+|+.+++..........+|+.
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            344445433344689999999999999999999988655555566664

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.92  E-value=0.0005  Score=60.97  Aligned_cols=49  Identities=18%  Similarity=0.140  Sum_probs=40.3

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.++|+...++++.+.+..-......|+|+|++|+||+++|+.+....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            3568999999999999888644445679999999999999999887543

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.91  E-value=0.0001  Score=68.90  Aligned_cols=49  Identities=27%  Similarity=0.368  Sum_probs=38.3

Q ss_pred             cCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++--..-++++.+||..   +....++++++||+|+||||.++.+++.+.
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg   70 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG   70 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3444445678888899886   333467899999999999999999998864

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.00044  Score=66.31  Aligned_cols=177  Identities=16%  Similarity=0.253  Sum_probs=99.4

Q ss_pred             CcccccHHHH---HHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677           10 ELVGMESRLE---KLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus        10 ~~vGR~~~l~---~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      ++.|-+...+   ++..+|++       +..-++=|+++||+|+|||-||+.++-+..-.     |+..    +.     
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-----F~sv----SG-----  377 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-----FFSV----SG-----  377 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-----eeee----ch-----
Confidence            4556655444   55555654       22235779999999999999999999664432     2221    11     


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-----------------hhhhhhhCCCCCCCC
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-----------------EQLRGLFGKRDWFGL  142 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-----------------~~~~~l~~~~~~~~~  142 (352)
                      .    ++...+.+...      ...-+.+...-...|+++.+|+++..                 ..+..++..+.-+..
T Consensus       378 S----EFvE~~~g~~a------srvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  378 S----EFVEMFVGVGA------SRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             H----HHHHHhcccch------HHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC
Confidence            1    12222222111      11112233333567899999998431                 124555544442222


Q ss_pred             Cc-eEEE-EeC-ch----hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          143 GS-MIII-TTR-DE----HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       143 ~~-~iii-tsr-~~----~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      .. -|++ +|. .+    .+....+++..+.+..=+.....++|..++...... ....+..+ ++..+-|++-+.-
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gadl  522 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGADL  522 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHHH
Confidence            22 3333 333 22    223334667788888888888899888877544433 23334444 9999999887653

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=0.00024  Score=65.60  Aligned_cols=130  Identities=18%  Similarity=0.281  Sum_probs=79.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      +.-|+++||+|+|||-||+.++++.+-+|     +. +      .+.      ++++.+.+.+.      ...-..+.+.
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NF-----is-V------KGP------ELlNkYVGESE------rAVR~vFqRA  600 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANF-----IS-V------KGP------ELLNKYVGESE------RAVRQVFQRA  600 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCce-----Ee-e------cCH------HHHHHHhhhHH------HHHHHHHHHh
Confidence            45588999999999999999999877664     21 1      111      44444443322      2222334445


Q ss_pred             hCCceEEEEEeCCCCh-------------hhhhhhhCCCCCC--CCCceEEE-EeCchhH----hhhcCcccEEecCCCC
Q 045677          112 LRHKKVLLLIDDVADV-------------EQLRGLFGKRDWF--GLGSMIII-TTRDEHL----LKLHRVEEVYKLEALN  171 (352)
Q Consensus       112 l~~~~~llvlDd~~~~-------------~~~~~l~~~~~~~--~~~~~iii-tsr~~~~----~~~~~~~~~~~l~~l~  171 (352)
                      -...+++|+||+++..             .-+..++..+.-.  ..+..||- |.|.+.+    +...+....+.+..-+
T Consensus       601 R~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn  680 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPN  680 (802)
T ss_pred             hcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCC
Confidence            5678999999999532             1144555444311  23444554 4454433    2223556677787778


Q ss_pred             HhHHHHHHHhhhcC
Q 045677          172 FDEAFRLFCLKAFD  185 (352)
Q Consensus       172 ~~e~~~ll~~~~~~  185 (352)
                      .+|-.++++.....
T Consensus       681 ~~eR~~ILK~~tkn  694 (802)
T KOG0733|consen  681 AEERVAILKTITKN  694 (802)
T ss_pred             HHHHHHHHHHHhcc
Confidence            88888888877653

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.87  E-value=0.0022  Score=55.98  Aligned_cols=52  Identities=13%  Similarity=0.109  Sum_probs=40.0

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      |...+.|+=.......+..++..+    +.++|.|++|+|||+++.+++..+...+
T Consensus        41 p~~d~~y~f~~~~~~~vl~~l~~~----~~ilL~G~pGtGKTtla~~lA~~l~~~~   92 (327)
T TIGR01650        41 PDIDPAYLFDKATTKAICAGFAYD----RRVMVQGYHGTGKSTHIEQIAARLNWPC   92 (327)
T ss_pred             CCCCCCccCCHHHHHHHHHHHhcC----CcEEEEeCCCChHHHHHHHHHHHHCCCe
Confidence            334455666666777788877632    4589999999999999999999987554

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>cd01394 radB RadB

Probab=97.87  E-value=7.2e-05  Score=62.44  Aligned_cols=49  Identities=18%  Similarity=0.215  Sum_probs=35.2

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..|-..+..+=....++.|+|++|+|||+|+.+++..........+|+.
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3445555533345689999999999999999999988755544555553

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

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.84  E-value=0.00023  Score=64.76  Aligned_cols=43  Identities=26%  Similarity=0.261  Sum_probs=32.2

Q ss_pred             cHHHHHHHHHHhcCC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           15 ESRLEKLKFLMCTGS-------NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        15 ~~~l~~l~~~l~~~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..|++++.++|....       .=++-|+++||+|+|||-||+.++-+..
T Consensus       313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~  362 (752)
T KOG0734|consen  313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG  362 (752)
T ss_pred             HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC
Confidence            356777777887521       1256699999999999999999985543

>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=97.84  E-value=6.8e-05  Score=61.01  Aligned_cols=129  Identities=19%  Similarity=0.150  Sum_probs=58.5

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh--cCCCcceeEeeeccccccCCCc-HHH-------HH
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM--SHEFDGSSFLADVRERCDKEGS-VIS-------LQ   83 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~-------l~   83 (352)
                      +..+-+...+.+..    ..++++.|++|+|||.||...+-+.  ...|...++.-..-......+. +-+       .+
T Consensus         5 ~~~~Q~~~~~al~~----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    5 KNEEQKFALDALLN----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             -SHHHHHHHHHHHH-----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             CCHHHHHHHHHHHh----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            44455555555552    3689999999999999998887653  3445555554322111110000 000       01


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHH------HhhhCCc---eEEEEEeCC--CChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMI------GSRLRHK---KVLLLIDDV--ADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~------~~~l~~~---~~llvlDd~--~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .-+...+....  .....+...+.-      ..+++++   +.+||+|++  .+..+++.++..+   +.++++|++.-
T Consensus        81 ~p~~d~l~~~~--~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~---g~~skii~~GD  154 (205)
T PF02562_consen   81 RPIYDALEELF--GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTRI---GEGSKIIITGD  154 (205)
T ss_dssp             HHHHHHHTTTS---TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB----TT-EEEEEE-
T ss_pred             HHHHHHHHHHh--ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHccc---CCCcEEEEecC
Confidence            11111111100  001111111000      1123343   579999999  4667888888775   67899999875

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.83  E-value=0.00094  Score=63.10  Aligned_cols=53  Identities=21%  Similarity=0.264  Sum_probs=44.4

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+..++|+...++++.+.+..-......|+|+|++|+|||.+|+.+.......
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~  237 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRA  237 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcC
Confidence            45679999999999999888755556789999999999999999998875433

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.82  E-value=0.00088  Score=63.04  Aligned_cols=201  Identities=11%  Similarity=0.068  Sum_probs=110.0

Q ss_pred             CCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc---CC--CcceeEeeeccccccCCCc
Q 045677            7 IPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMS---HE--FDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~---~~--~~~~~~~~~~~~~~~~~~~   78 (352)
                      .|..+-+|+.|..++..++..   .++...++.|+|.+|+|||..+..+.+.++   +.  -....|+. +.  .-....
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yve-IN--gm~l~~  470 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVE-IN--GLRLAS  470 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEE-Ec--ceeecC
Confidence            567788999999999998885   224456899999999999999999998754   11  22222221 11  111111


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhh-hCCceEEEEEeCCCCh-----hhhhhhhCCCCCCCCCceEEEEe-C
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR-LRHKKVLLLIDDVADV-----EQLRGLFGKRDWFGLGSMIIITT-R  151 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~~-----~~~~~l~~~~~~~~~~~~iiits-r  151 (352)
                      +.++...+...+.+.........+.+...+... -...++++++|+++..     +-+-.++....  ..+++++|.+ -
T Consensus       471 ~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt--~~~sKLvvi~Ia  548 (767)
T KOG1514|consen  471 PREIYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPT--LKNSKLVVIAIA  548 (767)
T ss_pred             HHHHHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCc--CCCCceEEEEec
Confidence            356666666665444333222333322222210 1246789999998543     33444443332  2455544322 1


Q ss_pred             ch-----hHhhhc----CcccEEecCCCCHhHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHHcCCCchhHH
Q 045677          152 DE-----HLLKLH----RVEEVYKLEALNFDEAFRLFCLKAFDTYKPL-EEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       152 ~~-----~~~~~~----~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~-~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      +.     .+....    -....+...|.+.++..+++..++.+..... ...+-++++++..+|---.++.
T Consensus       549 NTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRrald  619 (767)
T KOG1514|consen  549 NTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALD  619 (767)
T ss_pred             ccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHH
Confidence            11     111100    1235688899999999998888775442221 1222333444444444444443

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.82  E-value=5.2e-05  Score=60.14  Aligned_cols=47  Identities=23%  Similarity=0.290  Sum_probs=36.1

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +||....++++.+.+..-......|+|+|++|+||+.+|+.+.+.-.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~   47 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSP   47 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCST
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhh
Confidence            58899999999988886334447788999999999999999987543

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.82  E-value=0.00011  Score=58.10  Aligned_cols=33  Identities=27%  Similarity=0.273  Sum_probs=26.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ++|+|++|+|||+++..++..........+|+.
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            679999999999999999988766544555554

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.81  E-value=0.00023  Score=58.69  Aligned_cols=27  Identities=33%  Similarity=0.260  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +...++|+|++|+|||+||..++..+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            446789999999999999999998764

>PRK04296 thymidine kinase; Provisional

Probab=97.81  E-value=4.3e-05  Score=62.13  Aligned_cols=111  Identities=20%  Similarity=0.072  Sum_probs=59.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC-CCccchhhhHHHHHhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD-NSIRNVYDGVNMIGSR  111 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  111 (352)
                      .+++|+|++|+||||++..++.+...+.....++. . ........ .    .+...+..... .......++...+.+ 
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k-~-~~d~~~~~-~----~i~~~lg~~~~~~~~~~~~~~~~~~~~-   74 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK-P-AIDDRYGE-G----KVVSRIGLSREAIPVSSDTDIFELIEE-   74 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe-c-cccccccC-C----cEecCCCCcccceEeCChHHHHHHHHh-
Confidence            57889999999999999999988755543333331 1 00111111 1    12222211000 011233344444444 


Q ss_pred             hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          112 LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       112 l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ..++.-+||+|++.-  .+++.++...+.  ..+..+|+|.++.
T Consensus        75 ~~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~  116 (190)
T PRK04296         75 EGEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDT  116 (190)
T ss_pred             hCCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCc
Confidence            334556999999943  333444444432  4577899998863

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.81  E-value=4e-05  Score=63.54  Aligned_cols=38  Identities=16%  Similarity=0.211  Sum_probs=30.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ....++.|+|++|+|||+|+.+++..........+|+.
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34689999999999999999999988755555666665

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.81  E-value=0.00017  Score=71.91  Aligned_cols=51  Identities=16%  Similarity=0.284  Sum_probs=39.5

Q ss_pred             CCcCcccccHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            7 IPKELVGMESRLEKLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +...++|.+..++.+...+..       .+.....++++||+|+|||+||..+++.+-
T Consensus       507 L~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        507 LHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             hcCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            356789999999999887763       111224567899999999999999998864

>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=97.80  E-value=2.9e-05  Score=64.63  Aligned_cols=34  Identities=32%  Similarity=0.500  Sum_probs=28.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      -++|.|++|+|||+|+..+...+.+.|...+++.
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            4679999999999999999999998886555553

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

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.77  E-value=0.00046  Score=64.97  Aligned_cols=151  Identities=19%  Similarity=0.246  Sum_probs=83.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      .-|+++||+|+|||.||.+++....-+     |++ +      .+.      +++..+.+.+.      +..-+.+.+..
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~~~~-----fis-v------KGP------ElL~KyIGaSE------q~vR~lF~rA~  757 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNSNLR-----FIS-V------KGP------ELLSKYIGASE------QNVRDLFERAQ  757 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhCCee-----EEE-e------cCH------HHHHHHhcccH------HHHHHHHHHhh
Confidence            448899999999999999998664332     222 1      111      34444333222      22233445555


Q ss_pred             CCceEEEEEeCCCChh-------------hhhhhhCCCCC--CCCCceEEE-EeCchhHhhh----cCcccEEecCCCCH
Q 045677          113 RHKKVLLLIDDVADVE-------------QLRGLFGKRDW--FGLGSMIII-TTRDEHLLKL----HRVEEVYKLEALNF  172 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~-------------~~~~l~~~~~~--~~~~~~iii-tsr~~~~~~~----~~~~~~~~l~~l~~  172 (352)
                      .-+|+++.||++++..             -+..++..+.-  .-.|..|+- |||.+-+.+.    .+....+.=+.-+.
T Consensus       758 ~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~  837 (952)
T KOG0735|consen  758 SAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDE  837 (952)
T ss_pred             ccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCc
Confidence            6799999999996431             25566665541  123444553 6775533222    23333333333345


Q ss_pred             hHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          173 DEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       173 ~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .|-.++++...-....   .....++.++.+++|+.-|
T Consensus       838 ~eRl~il~~ls~s~~~---~~~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  838 PERLEILQVLSNSLLK---DTDVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHHHhhccCC---ccccchHHHhhhcCCCchh
Confidence            5556666554311111   1234577788999998754

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.76  E-value=9.8e-05  Score=57.50  Aligned_cols=118  Identities=13%  Similarity=0.043  Sum_probs=58.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH-----hcccC---CCcc----c
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL-----LMLAD---NSIR----N  100 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~~---~~~~----~  100 (352)
                      ..+.|++..|.||||+|...+-+...+.....++.-+... ...+. ...++.+- .+     .....   .+..    .
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 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGG-WKYGE-LKALERLP-NIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCC-CccCH-HHHHHhCC-CcEEEECCCCCccCCCChHHHHHH
Confidence            4678899999999999988887755554444443322221 01111 22222220 00     00000   0000    1


Q ss_pred             hhhhHHHHHhhhC-CceEEEEEeCCC-----ChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          101 VYDGVNMIGSRLR-HKKVLLLIDDVA-----DVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       101 ~~~~~~~~~~~l~-~~~~llvlDd~~-----~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ........++.+. +.-=++|||++-     ..-..+.+...+...+.+..+|+|+|+.
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            1112222233333 345699999982     2222333444444446678999999975

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.75  E-value=0.00022  Score=56.92  Aligned_cols=28  Identities=32%  Similarity=0.377  Sum_probs=24.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +++.++|+||+||||+|+++++.+++..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence            5788999999999999999999877663

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.74  E-value=0.0018  Score=63.59  Aligned_cols=50  Identities=22%  Similarity=0.271  Sum_probs=40.4

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ..++|+...++.+.+.+..-......|+|+|++|+|||.+|+.+......
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r  425 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGR  425 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCC
Confidence            36899999999988777753334467999999999999999999876543

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.73  E-value=0.00023  Score=60.12  Aligned_cols=49  Identities=20%  Similarity=0.064  Sum_probs=34.3

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..|-+.|..+=....++.|+|++|+|||+|+.+++...........|+.
T Consensus        12 ~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         12 EELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            3444555543345688999999999999999999876544444555554

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.73  E-value=0.0011  Score=60.78  Aligned_cols=42  Identities=21%  Similarity=0.294  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHh-----cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           16 SRLEKLKFLMC-----TGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        16 ~~l~~l~~~l~-----~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .-+.++..||.     .++-+.++++|+||+|+||||.++.++..+.
T Consensus        89 kKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg  135 (634)
T KOG1970|consen   89 KKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELG  135 (634)
T ss_pred             HhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhC
Confidence            34677888888     4555678999999999999999999987753

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

Probab=97.72  E-value=0.00045  Score=57.97  Aligned_cols=40  Identities=28%  Similarity=0.152  Sum_probs=29.1

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      |-+.|..+-....++.|+|++|+|||+|+.+++.......
T Consensus         8 lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~   47 (226)
T cd01393           8 LDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPG   47 (226)
T ss_pred             HHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhccc
Confidence            3444443334468899999999999999999987754443

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.71  E-value=0.0003  Score=60.26  Aligned_cols=102  Identities=17%  Similarity=0.105  Sum_probs=58.9

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS   97 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   97 (352)
                      ++.|.+++..   ...+++|.|+.|+||||++..+...+.......+.+.+....... ..         .+    ....
T Consensus        69 ~~~l~~~~~~---~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~-~~---------~q----~~v~  131 (264)
T cd01129          69 LEIFRKLLEK---PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIP-GI---------NQ----VQVN  131 (264)
T ss_pred             HHHHHHHHhc---CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCC-Cc---------eE----EEeC
Confidence            3445444442   236899999999999999999887765432233333221111000 00         00    0001


Q ss_pred             ccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCC
Q 045677           98 IRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGK  136 (352)
Q Consensus        98 ~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~  136 (352)
                      ..........+...+...+-.++++++.+.+....++..
T Consensus       132 ~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         132 EKAGLTFARGLRAILRQDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             CcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHH
Confidence            111123556677778888999999999888765554444

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.70  E-value=9.7e-05  Score=60.38  Aligned_cols=115  Identities=19%  Similarity=0.180  Sum_probs=57.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS   97 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   97 (352)
                      .+.+...+.+   +.++++|.|++|+|||+++..+...+.... ..+.+.     ++.    ......+.....    ..
T Consensus         7 ~~a~~~~l~~---~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~-----apT----~~Aa~~L~~~~~----~~   69 (196)
T PF13604_consen    7 REAVRAILTS---GDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGL-----APT----NKAAKELREKTG----IE   69 (196)
T ss_dssp             HHHHHHHHHC---TCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEE-----ESS----HHHHHHHHHHHT----S-
T ss_pred             HHHHHHHHhc---CCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEE-----CCc----HHHHHHHHHhhC----cc
Confidence            3444444452   337888999999999999999888776653 233332     111    122222222211    11


Q ss_pred             ccchhhhHHHHHhhh------CCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           98 IRNVYDGVNMIGSRL------RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        98 ~~~~~~~~~~~~~~l------~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      ...+..+.......-      .....+||+|++.  +...+..++....  ..+.++|+..=
T Consensus        70 a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD  129 (196)
T PF13604_consen   70 AQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGD  129 (196)
T ss_dssp             EEEHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-
T ss_pred             hhhHHHHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECC
Confidence            111111000000000      1234599999995  4455666666654  34678877664

>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=97.67  E-value=0.00036  Score=56.90  Aligned_cols=35  Identities=20%  Similarity=0.248  Sum_probs=26.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +++++++||.|+||||.+.+++.....+.....++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~li   35 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALI   35 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceee
Confidence            36899999999999999999998876553333333

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 ....

>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=97.67  E-value=4.3e-05  Score=57.23  Aligned_cols=23  Identities=39%  Similarity=0.453  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +|+|.|++|+||||+|+.+++.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999876

...

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

Probab=97.65  E-value=0.00023  Score=62.28  Aligned_cols=48  Identities=27%  Similarity=0.253  Sum_probs=34.6

Q ss_pred             HHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|-..|. .+=+..+++.|+|++|+|||+|+.+++..........+|+.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            3444444 33345689999999999999999999887665555566664

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK06696 uridine kinase; Validated

Probab=97.65  E-value=0.00012  Score=61.17  Aligned_cols=47  Identities=19%  Similarity=0.198  Sum_probs=38.5

Q ss_pred             cccHHHHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           13 GMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        13 GR~~~l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .|...+++|.+.+.. ..++..+|.|.|++|+||||||..++..+...
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            467778888888764 34567889999999999999999999988644

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=0.0051  Score=55.28  Aligned_cols=28  Identities=18%  Similarity=0.369  Sum_probs=23.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .|-.+++||||+|||+++.+++..+.-+
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~yd  262 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLNYD  262 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcCCc
Confidence            4668899999999999999999776543

>PTZ00494 tuzin-like protein; Provisional

Probab=97.64  E-value=0.0033  Score=56.52  Aligned_cols=168  Identities=13%  Similarity=0.067  Sum_probs=95.4

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC-CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG-SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~-~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      .+..+..+|.|+.|-.-+.+.|... ...+++++++|..|.|||+|.+....+-   .-..+|+ +++.   ..    +.
T Consensus       366 a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE---~~paV~V-DVRg---~E----Dt  434 (664)
T PTZ00494        366 AAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE---GVALVHV-DVGG---TE----DT  434 (664)
T ss_pred             cccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc---CCCeEEE-EecC---Cc----ch
Confidence            3556778999999988887777753 3457999999999999999988776542   2234444 3433   33    33


Q ss_pred             HHHHHHHHhcccCCCccchhhhH-HHHH---hhhCCceEEEEEeCC--CChhh-hhhhhCCCCCCCCCceEEEEeCchhH
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGV-NMIG---SRLRHKKVLLLIDDV--ADVEQ-LRGLFGKRDWFGLGSMIIITTRDEHL  155 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~l~~~~~llvlDd~--~~~~~-~~~l~~~~~~~~~~~~iiitsr~~~~  155 (352)
                      ++.+.+.+.-+......+.-+++ +...   ....++..+||+-=-  .+..- +.+.... .-...-|+|++----+.+
T Consensus       435 LrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~vaL-acDrRlCHvv~EVplESL  513 (664)
T PTZ00494        435 LRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVVSL-VSDCQACHIVLAVPMKAL  513 (664)
T ss_pred             HHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHHHH-HccchhheeeeechHhhh
Confidence            45555554443333333332222 2222   223455556665332  22211 1111111 101345677764433322


Q ss_pred             hhh---cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          156 LKL---HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       156 ~~~---~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ...   .+....|.+++|+.+++.++.+...
T Consensus       514 T~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        514 TPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             chhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            111   2345678999999999999887765

>CHL00206 ycf2 Ycf2; Provisional

Probab=97.64  E-value=0.0004  Score=72.46  Aligned_cols=30  Identities=20%  Similarity=0.170  Sum_probs=24.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++-|+++||+|+|||.||+.++....-.
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es~VP 1657 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNSYVP 1657 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhcCCc
Confidence            345779999999999999999999875433

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.64  E-value=0.00021  Score=58.52  Aligned_cols=106  Identities=16%  Similarity=0.192  Sum_probs=58.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      .+++|.|++|+||||++..++..+.......++...-    +.... ..-...+    ...... ..+.......+...+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~----~~E~~-~~~~~~~----i~q~~v-g~~~~~~~~~i~~aL   71 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIED----PIEFV-HESKRSL----INQREV-GLDTLSFENALKAAL   71 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcC----Ccccc-ccCccce----eeeccc-CCCccCHHHHHHHHh
Confidence            4789999999999999999888776543333333211    10000 0000000    000000 111233455666777


Q ss_pred             CCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677          113 RHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      ...+=++++|++.+.+.+...+....   .+..++.|+-
T Consensus        72 r~~pd~ii~gEird~e~~~~~l~~a~---~G~~v~~t~H  107 (198)
T cd01131          72 RQDPDVILVGEMRDLETIRLALTAAE---TGHLVMSTLH  107 (198)
T ss_pred             cCCcCEEEEcCCCCHHHHHHHHHHHH---cCCEEEEEec
Confidence            77788999999987776655444322   2334555554

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=97.63  E-value=0.0017  Score=61.53  Aligned_cols=48  Identities=17%  Similarity=0.052  Sum_probs=37.8

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.++|....++++.+.+..-......|+|+|++|+||+.+|+.+....
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s  251 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRS  251 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhC
Confidence            468999999998888776423334568999999999999999965543

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

Probab=97.63  E-value=0.00046  Score=53.71  Aligned_cols=25  Identities=32%  Similarity=0.512  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +++|+|.+|+||||+++.+...+..
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.

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

Probab=97.62  E-value=0.00033  Score=59.59  Aligned_cols=42  Identities=33%  Similarity=0.508  Sum_probs=33.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRER   72 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~   72 (352)
                      ..+-+.|.|.+|+|||+|+.+++...+.+|...+++..++..
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer  109 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGER  109 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccC
Confidence            346788999999999999999999987776666666654443

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.00066  Score=64.06  Aligned_cols=152  Identities=17%  Similarity=0.189  Sum_probs=83.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIG  109 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (352)
                      ...+.++++||+|+|||.||+.++......|-....-                  .+...+.+.      ........+.
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~------------------~l~sk~vGe------sek~ir~~F~  329 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGS------------------ELLSKWVGE------SEKNIRELFE  329 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCH------------------HHhccccch------HHHHHHHHHH
Confidence            3456799999999999999999998665543211111                  111111111      1111222333


Q ss_pred             hhhCCceEEEEEeCCCCh-------------hhhhhhhCCCCCC--CCCceEEEEeCchh-Hhh----hcCcccEEecCC
Q 045677          110 SRLRHKKVLLLIDDVADV-------------EQLRGLFGKRDWF--GLGSMIIITTRDEH-LLK----LHRVEEVYKLEA  169 (352)
Q Consensus       110 ~~l~~~~~llvlDd~~~~-------------~~~~~l~~~~~~~--~~~~~iiitsr~~~-~~~----~~~~~~~~~l~~  169 (352)
                      ......+++|+||+++..             ..+..++..+...  ..+..+|-+|.... +.+    ..++...+.+++
T Consensus       330 ~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~  409 (494)
T COG0464         330 KARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPL  409 (494)
T ss_pred             HHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCC
Confidence            444578999999999432             1233344333211  23333444443222 211    125667889999


Q ss_pred             CCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC
Q 045677          170 LNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG  206 (352)
Q Consensus       170 l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G  206 (352)
                      -+.++..+.|.........+ -...-..+.+.+.+.|
T Consensus       410 pd~~~r~~i~~~~~~~~~~~-~~~~~~~~~l~~~t~~  445 (494)
T COG0464         410 PDLEERLEIFKIHLRDKKPP-LAEDVDLEELAEITEG  445 (494)
T ss_pred             CCHHHHHHHHHHHhcccCCc-chhhhhHHHHHHHhcC
Confidence            99999999998877432222 1122345556666666

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.61  E-value=0.00021  Score=56.74  Aligned_cols=22  Identities=23%  Similarity=0.146  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +++|.|++|+|||++|.+++..
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh
Confidence            3689999999999999999876

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.61  E-value=0.00028  Score=61.69  Aligned_cols=48  Identities=27%  Similarity=0.287  Sum_probs=34.7

Q ss_pred             HHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|-..|. .+=...+++.|+|++|+|||+|+.+++..........+|+.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            3444454 33345689999999999999999998887665555556664

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.

>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=97.60  E-value=5.1e-05  Score=58.84  Aligned_cols=35  Identities=31%  Similarity=0.214  Sum_probs=28.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..+|+|+|.+|+||||||..+.+.+........++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L   36 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARGIKVYLL   36 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence            36899999999999999999999987776555554

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 ....

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.59  E-value=0.00059  Score=66.11  Aligned_cols=154  Identities=15%  Similarity=0.168  Sum_probs=79.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      +-++|+|++|+|||++++.++......|    +.....          ++.    ......      ........+....
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f----~~is~~----------~~~----~~~~g~------~~~~~~~~f~~a~  241 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPF----FTISGS----------DFV----EMFVGV------GASRVRDMFEQAK  241 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCE----EEEehH----------HhH----Hhhhcc------cHHHHHHHHHHHH
Confidence            4599999999999999999988765432    111110          110    000000      0111222233333


Q ss_pred             CCceEEEEEeCCCChh----------------hhhhhhCCCCCC--CCCceEEEEeCchhH-----hhhcCcccEEecCC
Q 045677          113 RHKKVLLLIDDVADVE----------------QLRGLFGKRDWF--GLGSMIIITTRDEHL-----LKLHRVEEVYKLEA  169 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~--~~~~~iiitsr~~~~-----~~~~~~~~~~~l~~  169 (352)
                      ...+.+|+||+++...                .+..++..+...  ..+..+|.||.....     ....++...+.++.
T Consensus       242 ~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~  321 (644)
T PRK10733        242 KAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL  321 (644)
T ss_pred             hcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCC
Confidence            4578999999995431                123333333211  223344445544322     11124567788888


Q ss_pred             CCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHH
Q 045677          170 LNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDV  213 (352)
Q Consensus       170 l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~  213 (352)
                      -+.++-.+++............   -....+++.+.| .+.-|..
T Consensus       322 Pd~~~R~~Il~~~~~~~~l~~~---~d~~~la~~t~G~sgadl~~  363 (644)
T PRK10733        322 PDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFSGADLAN  363 (644)
T ss_pred             CCHHHHHHHHHHHhhcCCCCCc---CCHHHHHhhCCCCCHHHHHH
Confidence            8888888888776533221111   113446666665 3333433

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.56  E-value=0.00046  Score=58.28  Aligned_cols=36  Identities=28%  Similarity=0.269  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |-..|..+=....++.|+|++|+|||+|+.+++...
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~   43 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHe
Confidence            334444333456889999999999999999998664

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 .

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.56  E-value=0.00012  Score=67.93  Aligned_cols=50  Identities=26%  Similarity=0.325  Sum_probs=42.6

Q ss_pred             CcccccHHHHHHHHHHh----cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           10 ELVGMESRLEKLKFLMC----TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~----~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +++|-+..++.+.+.|.    ..+...++++++||+|+|||+|+..++..+.+.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            58999999999999883    234566899999999999999999999877655

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.56  E-value=9.6e-05  Score=56.55  Aligned_cols=34  Identities=29%  Similarity=0.423  Sum_probs=27.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~   66 (352)
                      --++|+|++|+||||++..++..++.. |..+-|+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~   40 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFI   40 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEE
Confidence            458899999999999999999988776 5444333

>PRK09354 recA recombinase A; Provisional

Probab=97.55  E-value=0.00044  Score=61.02  Aligned_cols=96  Identities=21%  Similarity=0.245  Sum_probs=55.0

Q ss_pred             HHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHH---HHHHhcccC
Q 045677           20 KLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQL---LSDLLMLAD   95 (352)
Q Consensus        20 ~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~   95 (352)
                      .|-..|. .+=...+++.|+|++|+|||+|+.+++..........+|+..-....      ......+   +..+..   
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~------~~~a~~lGvdld~lli---  117 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALD------PVYAKKLGVDIDNLLV---  117 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchH------HHHHHHcCCCHHHeEE---
Confidence            4444455 33345689999999999999999999887766655666664221111      1111111   111111   


Q ss_pred             CCccchhhhHHHHHhhhC-CceEEEEEeCC
Q 045677           96 NSIRNVYDGVNMIGSRLR-HKKVLLLIDDV  124 (352)
Q Consensus        96 ~~~~~~~~~~~~~~~~l~-~~~~llvlDd~  124 (352)
                      ..+...++....+..... +..-+||+|.+
T Consensus       118 ~qp~~~Eq~l~i~~~li~s~~~~lIVIDSv  147 (349)
T PRK09354        118 SQPDTGEQALEIADTLVRSGAVDLIVVDSV  147 (349)
T ss_pred             ecCCCHHHHHHHHHHHhhcCCCCEEEEeCh
Confidence            112334455555554443 45668999998

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.54  E-value=0.00046  Score=55.43  Aligned_cols=36  Identities=31%  Similarity=0.551  Sum_probs=29.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      .+.++++.|++|+||||+++.++..+...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence            346899999999999999999999987665555555

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.54  E-value=0.00018  Score=67.69  Aligned_cols=28  Identities=36%  Similarity=0.433  Sum_probs=24.2

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+..++.+++|++|.||||||..++++.
T Consensus       323 RP~kKilLL~GppGlGKTTLAHViAkqa  350 (877)
T KOG1969|consen  323 RPPKKILLLCGPPGLGKTTLAHVIAKQA  350 (877)
T ss_pred             CCccceEEeecCCCCChhHHHHHHHHhc
Confidence            3557899999999999999999998653

>PRK06762 hypothetical protein; Provisional

Probab=97.53  E-value=0.0011  Score=52.76  Aligned_cols=25  Identities=36%  Similarity=0.458  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.+++|+|++|+||||+|+.+...+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999877

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.53  E-value=0.0062  Score=51.18  Aligned_cols=208  Identities=13%  Similarity=0.131  Sum_probs=107.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC------CCcceeEeeeccc------cccCCC
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH------EFDGSSFLADVRE------RCDKEG   77 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~------~~~~~~~~~~~~~------~~~~~~   77 (352)
                      .+.+++..-..|.....  .++.+-..++||+|.||-|.+..+.+++-.      +.....|......      .++...
T Consensus        14 ~l~~~~e~~~~Lksl~~--~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSS--TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             hcccHHHHHHHHHHhcc--cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            35666666666666555  455688899999999999988777775421      1112222221110      000000


Q ss_pred             c----------HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceE-EEEEeCCCCh--hhhhhhhCCCCCCCCCc
Q 045677           78 S----------VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKV-LLLIDDVADV--EQLRGLFGKRDWFGLGS  144 (352)
Q Consensus        78 ~----------~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-llvlDd~~~~--~~~~~l~~~~~~~~~~~  144 (352)
                      .          -.-+..+++.........             +....+++ ++||-.+++.  +.-..+.+....-...+
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~qi-------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~  158 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQI-------------ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNC  158 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcch-------------hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCc
Confidence            0          011222222221111100             01112333 6666666532  22333333332224577


Q ss_pred             eEEEEeCc--hhHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC--
Q 045677          145 MIIITTRD--EHLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG--  220 (352)
Q Consensus       145 ~iiitsr~--~~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~--  220 (352)
                      ++|+.-.+  .-+.+.-...-.++++..+.+|....+...........+  .+.+.+|+++++||-.---++....+-  
T Consensus       159 RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n  236 (351)
T KOG2035|consen  159 RLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNN  236 (351)
T ss_pred             eEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhcc
Confidence            87763221  112222234557899999999999998877633332222  488999999999986543333333221  


Q ss_pred             ---------CChhHHHHHHHHHc
Q 045677          221 ---------RPVDQWRSTQERLK  234 (352)
Q Consensus       221 ---------~~~~~~~~~~~~~~  234 (352)
                               -+..+|+.+.....
T Consensus       237 ~~~~a~~~~i~~~dWe~~i~e~a  259 (351)
T KOG2035|consen  237 EPFTANSQVIPKPDWEIYIQEIA  259 (351)
T ss_pred             ccccccCCCCCCccHHHHHHHHH
Confidence                     13567887776653

>PRK07667 uridine kinase; Provisional

Probab=97.52  E-value=0.00027  Score=57.69  Aligned_cols=42  Identities=26%  Similarity=0.300  Sum_probs=33.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.+.+.+....+...+|.|.|++|+||||++..+...+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            455666666555566889999999999999999999987654

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.50  E-value=0.0006  Score=61.22  Aligned_cols=48  Identities=23%  Similarity=0.198  Sum_probs=33.5

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|.+.|..+-....+++|.|++|+|||+|+.+++...........|+.
T Consensus        70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344444432234578999999999999999999988765544445553

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.50  E-value=0.001  Score=54.29  Aligned_cols=30  Identities=40%  Similarity=0.516  Sum_probs=26.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .++.+|.|.|.+|+||||+++.+...++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            345789999999999999999999988755

>PRK04328 hypothetical protein; Provisional

Probab=97.50  E-value=0.00048  Score=58.61  Aligned_cols=48  Identities=13%  Similarity=0.114  Sum_probs=33.7

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|-+.|..+=....+++|.|++|+|||+|+.+++..........+|+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            344445533335688999999999999999998877444445555554

>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=97.48  E-value=0.00015  Score=62.08  Aligned_cols=34  Identities=21%  Similarity=0.195  Sum_probs=23.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ++|+|+|.||+||||+|.++...+........++
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i   35 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVII   35 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            5789999999999999999999876643333333

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.48  E-value=0.0011  Score=54.61  Aligned_cols=30  Identities=30%  Similarity=0.438  Sum_probs=25.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +.++-|+++||+|+|||-|++.+++.....
T Consensus       187 dpprgvllygppg~gktml~kava~~t~a~  216 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTTAA  216 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccchh
Confidence            456889999999999999999999765544

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.45  E-value=0.0017  Score=59.52  Aligned_cols=29  Identities=31%  Similarity=0.377  Sum_probs=25.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.+++++|++|+||||++..++..+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46789999999999999999999887655

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.45  E-value=0.00064  Score=60.72  Aligned_cols=95  Identities=18%  Similarity=0.207  Sum_probs=55.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      ...++|.|++|+||||+++.+...+.......++...     ++...   ..... ......... ..........+...
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiE-----dp~E~---~~~~~-~~~i~q~ev-g~~~~~~~~~l~~~  191 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIE-----DPIEY---VHRNK-RSLINQREV-GLDTLSFANALRAA  191 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEc-----CChhh---hccCc-cceEEcccc-CCCCcCHHHHHHHh
Confidence            3789999999999999999988877654444444321     01000   00000 000000000 11123455667777


Q ss_pred             hCCceEEEEEeCCCChhhhhhhhCC
Q 045677          112 LRHKKVLLLIDDVADVEQLRGLFGK  136 (352)
Q Consensus       112 l~~~~~llvlDd~~~~~~~~~l~~~  136 (352)
                      +...+=+|++|++.+.+.....+..
T Consensus       192 lr~~pd~i~vgEird~~~~~~~l~a  216 (343)
T TIGR01420       192 LREDPDVILIGEMRDLETVELALTA  216 (343)
T ss_pred             hccCCCEEEEeCCCCHHHHHHHHHH
Confidence            8889999999999877766554443

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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=0.0023  Score=60.18  Aligned_cols=174  Identities=19%  Similarity=0.240  Sum_probs=92.8

Q ss_pred             CcccccHHHHHH---HHHHhcCC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677           10 ELVGMESRLEKL---KFLMCTGS-------NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus        10 ~~vGR~~~l~~l---~~~l~~~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      +..|.+...+++   .+.|....       .-++-|.++||+|+|||.||+.++-+..-.|    |..     +.     
T Consensus       151 DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPF----f~i-----SG-----  216 (596)
T COG0465         151 DVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF----FSI-----SG-----  216 (596)
T ss_pred             hhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCc----eec-----cc-----
Confidence            446766655555   44555322       2356799999999999999999986644332    111     00     


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------------hhhhhhhCCCCCCCC-
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------------EQLRGLFGKRDWFGL-  142 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------------~~~~~l~~~~~~~~~-  142 (352)
                      .    ++...+.+...      ...-+.+.+..++.|++++||.++..                +.+..++....-+.. 
T Consensus       217 S----~FVemfVGvGA------sRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         217 S----DFVEMFVGVGA------SRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             h----hhhhhhcCCCc------HHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence            0    11111111111      11123344555677899999998531                234455544443332 


Q ss_pred             CceEEE--EeCchh----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          143 GSMIII--TTRDEH----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       143 ~~~iii--tsr~~~----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ...||+  |.|.+-    +....++...+.++.-+...-.++++.+.........   -....|++.+-|+-.+
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~---Vdl~~iAr~tpGfsGA  357 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAED---VDLKKIARGTPGFSGA  357 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCc---CCHHHHhhhCCCcccc
Confidence            223444  455432    2333456677878777777777777755433222211   1133377777776544

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=97.42  E-value=0.00033  Score=62.62  Aligned_cols=101  Identities=23%  Similarity=0.350  Sum_probs=55.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      .++-+.|||+.|.|||-|+-.++..+.......+-+             ...+..+-..+.... ..    ...+..+.+
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HF-------------h~Fm~~vh~~l~~~~-~~----~~~l~~va~  122 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHF-------------HEFMLDVHSRLHQLR-GQ----DDPLPQVAD  122 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccccccc-------------cHHHHHHHHHHHHHh-CC----CccHHHHHH
Confidence            467799999999999999999998864421111111             122222222222111 11    112334455


Q ss_pred             hhCCceEEEEEeCC--CChhh---hhhhhCCCCCCCCCceEEEEeC
Q 045677          111 RLRHKKVLLLIDDV--ADVEQ---LRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       111 ~l~~~~~llvlDd~--~~~~~---~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+.++..||+||++  .+..+   +..++..+.  ..|..+|.||.
T Consensus       123 ~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN  166 (362)
T PF03969_consen  123 ELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSN  166 (362)
T ss_pred             HHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCC
Confidence            55667779999998  34443   444444443  34555555554

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

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

Probab=97.42  E-value=8.6e-05  Score=54.23  Aligned_cols=25  Identities=36%  Similarity=0.519  Sum_probs=21.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      |.|+|++|+|||+|+..++..+.++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            5799999999999999999886554

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

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.42  E-value=0.0012  Score=53.06  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++-..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            4678999999999999999987654

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=97.41  E-value=0.0043  Score=58.23  Aligned_cols=49  Identities=16%  Similarity=0.222  Sum_probs=39.6

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|+...++.+.+.+.........|+|+|++|+|||++|+.+.....
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~  186 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSP  186 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCC
Confidence            4689999999988887765444456799999999999999988877643

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

Probab=97.39  E-value=0.00046  Score=53.28  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +|++.|++|+||||+++.+.....
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            578999999999999999987655

...

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.39  E-value=0.00062  Score=62.92  Aligned_cols=50  Identities=20%  Similarity=0.186  Sum_probs=34.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +..|-+.|..+=....++.|.|++|+|||+|+.+++..........+|+.
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34455555533234579999999999999999999988754434445554

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=97.38  E-value=0.013  Score=51.03  Aligned_cols=143  Identities=12%  Similarity=0.106  Sum_probs=84.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh-cCC--------Cc-ceeEeeeccccccCCCcHHHHHHHHH
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM-SHE--------FD-GSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~-~~~--------~~-~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      ++.+.+.+.. +.-.+..+++|+.|+||++++..+++.+ +.+        .+ ...++ +..   ..... .+-.+++.
T Consensus         5 ~~~l~~~i~~-~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~-d~~---g~~i~-vd~Ir~l~   78 (299)
T PRK07132          5 IKFLDNSATQ-NKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILF-DIF---DKDLS-KSEFLSAI   78 (299)
T ss_pred             HHHHHHHHHh-CCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEe-ccC---CCcCC-HHHHHHHH
Confidence            4455555653 2345888899999999999999999886 211        11 11111 100   00000 01111121


Q ss_pred             HHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCc-hhHhhh-cCccc
Q 045677           88 SDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRD-EHLLKL-HRVEE  163 (352)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~~-~~~~~  163 (352)
                      ..+.-.+                .-.+.+=++|+|+++..  .....++..+.+.+..+.+|++|.+ ..+.+. ...+.
T Consensus        79 ~~~~~~~----------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~  142 (299)
T PRK07132         79 NKLYFSS----------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQ  142 (299)
T ss_pred             HHhccCC----------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeE
Confidence            1111000                00146668999999644  4567788888777788887775543 344433 35577


Q ss_pred             EEecCCCCHhHHHHHHHhh
Q 045677          164 VYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       164 ~~~l~~l~~~e~~~ll~~~  182 (352)
                      .+++.+++.++..+.+.+.
T Consensus       143 ~~~f~~l~~~~l~~~l~~~  161 (299)
T PRK07132        143 VFNVKEPDQQKILAKLLSK  161 (299)
T ss_pred             EEECCCCCHHHHHHHHHHc
Confidence            8999999999999887764

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=0.0013  Score=58.23  Aligned_cols=48  Identities=25%  Similarity=0.223  Sum_probs=34.6

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .++.+.|..+-=+..+++|-|.||+|||||+.+++.++.... ...|++
T Consensus        80 ~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs  127 (456)
T COG1066          80 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS  127 (456)
T ss_pred             HHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe
Confidence            444454553222457899999999999999999999987766 444443

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=0.0079  Score=57.50  Aligned_cols=69  Identities=25%  Similarity=0.353  Sum_probs=43.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR  113 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  113 (352)
                      -|++|||+|+|||-+|+.++-+..-.|     ++ +      .+.      ++++...+++.      +..-+.+.+.-.
T Consensus       707 GILLYGPPGTGKTLlAKAVATEcsL~F-----lS-V------KGP------ELLNMYVGqSE------~NVR~VFerAR~  762 (953)
T KOG0736|consen  707 GILLYGPPGTGKTLLAKAVATECSLNF-----LS-V------KGP------ELLNMYVGQSE------ENVREVFERARS  762 (953)
T ss_pred             eeEEECCCCCchHHHHHHHHhhceeeE-----Ee-e------cCH------HHHHHHhcchH------HHHHHHHHHhhc
Confidence            488999999999999999997654332     22 1      111      44444444332      222233444445


Q ss_pred             CceEEEEEeCCCC
Q 045677          114 HKKVLLLIDDVAD  126 (352)
Q Consensus       114 ~~~~llvlDd~~~  126 (352)
                      ..|++|.||++++
T Consensus       763 A~PCVIFFDELDS  775 (953)
T KOG0736|consen  763 AAPCVIFFDELDS  775 (953)
T ss_pred             cCCeEEEeccccc
Confidence            6899999999965

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.37  E-value=0.0013  Score=51.98  Aligned_cols=119  Identities=13%  Similarity=-0.043  Sum_probs=58.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH---hcccC---CCc----cchh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL---LMLAD---NSI----RNVY  102 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~~---~~~----~~~~  102 (352)
                      ..+.|++..|.||||.|..++.+...+...+..+.-+... ...+. ...+..+.-.+   .....   .+.    ....
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~-~~~GE-~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~   83 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGA-WPNGE-RAAFEPHGVEFQVMGTGFTWETQNREADTAIAK   83 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-cccCh-HHHHHhcCcEEEECCCCCeecCCCcHHHHHHHH
Confidence            5788899999999999988887754443333222211111 01111 22222220000   00000   000    1122


Q ss_pred             hhHHHHHhhhC-CceEEEEEeCCC-----ChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          103 DGVNMIGSRLR-HKKVLLLIDDVA-----DVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       103 ~~~~~~~~~l~-~~~~llvlDd~~-----~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ......++.+. +.-=++|||++-     ..-+.+++...+...+.+..+|+|.|+.
T Consensus        84 ~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        84 AAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            22333334443 445599999982     2222233333333346778999999975

Alternate name: corrinoid adenosyltransferase.

>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=97.37  E-value=0.0013  Score=52.17  Aligned_cols=117  Identities=20%  Similarity=0.175  Sum_probs=57.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeee---ccccccCCCcH-HHHHHHHHHHHhcccCCCccchhhhHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD---VRERCDKEGSV-ISLQKQLLSDLLMLADNSIRNVYDGVNM  107 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (352)
                      ..++.|.|+.|+|||||++.++-..... ...+++..   .....+..... ..+.+.+..    .........+...-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~----~~~~~LS~G~~~rv~  101 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIY----PWDDVLSGGEQQRLA  101 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHhhc----cCCCCCCHHHHHHHH
Confidence            4689999999999999999988654322 22222211   11111111110 122222211    011222223333334


Q ss_pred             HHhhhCCceEEEEEeCCC---ChhhhhhhhCCCCCCCCCceEEEEeCchhH
Q 045677          108 IGSRLRHKKVLLLIDDVA---DVEQLRGLFGKRDWFGLGSMIIITTRDEHL  155 (352)
Q Consensus       108 ~~~~l~~~~~llvlDd~~---~~~~~~~l~~~~~~~~~~~~iiitsr~~~~  155 (352)
                      +...+..++-++++|+-.   +......+...+...  +..+|++|.+...
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~  150 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSL  150 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhH
Confidence            445556778899999973   333333332222211  3456677666543

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

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=97.35  E-value=0.0069  Score=59.12  Aligned_cols=49  Identities=14%  Similarity=0.217  Sum_probs=39.4

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.++|....++++.+....-......|+|+|++|+||+++|+.+.+...
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~  373 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESE  373 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCC
Confidence            4689999999988887775333345689999999999999999887644

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=97.35  E-value=0.00035  Score=61.22  Aligned_cols=58  Identities=29%  Similarity=0.270  Sum_probs=40.6

Q ss_pred             CCCCCcCcccccHHHHHH---HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677            4 ELEIPKELVGMESRLEKL---KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l---~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      +......+||.....+..   .+++..+.=..+.+++.||+|+|||+||..+++.+..+.+
T Consensus        19 ~~~~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~P   79 (398)
T PF06068_consen   19 ARYIADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVP   79 (398)
T ss_dssp             B-SEETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-
T ss_pred             EeeccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCC
Confidence            334567899999888754   4555544334589999999999999999999999987754

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.34  E-value=0.0039  Score=55.71  Aligned_cols=29  Identities=31%  Similarity=0.357  Sum_probs=24.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .++.++|+|++|+||||++..++..+...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~  268 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGK  268 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            34789999999999999999999877544

>PRK08118 topology modulation protein; Reviewed

Probab=97.33  E-value=0.00021  Score=56.82  Aligned_cols=26  Identities=38%  Similarity=0.510  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      -|+|+|++|+||||||+.++..+.-.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            47899999999999999999886443

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.33  E-value=0.0004  Score=52.37  Aligned_cols=42  Identities=19%  Similarity=0.149  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.+++.+.+.+.-....++++.|+.|+|||||++.+++.+.
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            455566666654323447899999999999999999998864

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.

>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=97.33  E-value=0.0016  Score=52.48  Aligned_cols=122  Identities=20%  Similarity=0.262  Sum_probs=58.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC-CcHH---HHHHHHHHHHhcc-----cCCCccchh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE-GSVI---SLQKQLLSDLLML-----ADNSIRNVY  102 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~l~~~~~~~~~~~-----~~~~~~~~~  102 (352)
                      ..++.|.|+.|+|||||++.++-.... ....+++... +..... ..+.   ..+.+++..+...     ........+
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~-~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~  102 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGK-DLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGE  102 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCE-ECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHH
Confidence            468999999999999999998765432 2333444211 111100 0000   1111122222111     111112222


Q ss_pred             hhHHHHHhhhCCceEEEEEeCCC---ChhhhhhhhCCCCCC-CC-CceEEEEeCchhH
Q 045677          103 DGVNMIGSRLRHKKVLLLIDDVA---DVEQLRGLFGKRDWF-GL-GSMIIITTRDEHL  155 (352)
Q Consensus       103 ~~~~~~~~~l~~~~~llvlDd~~---~~~~~~~l~~~~~~~-~~-~~~iiitsr~~~~  155 (352)
                      ...-.+...+...+-++++|+-.   +....+.+...+... .. +..+|++|.+...
T Consensus       103 ~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~  160 (180)
T cd03214         103 RQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNL  160 (180)
T ss_pred             HHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            33333445556688899999983   333333333332211 12 4567777765543

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.32  E-value=0.0017  Score=56.36  Aligned_cols=29  Identities=28%  Similarity=0.257  Sum_probs=24.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+++.|+|++|+||||++..++..+...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~  221 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLE  221 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            35689999999999999999999876543

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

Probab=97.32  E-value=0.002  Score=53.10  Aligned_cols=60  Identities=20%  Similarity=0.228  Sum_probs=36.2

Q ss_pred             cchhhhHHHHHhhhCCceEEEEEeCC----CC--hhhhhhhhCCCCCCCCCceEEEEeCchhHhhhc
Q 045677           99 RNVYDGVNMIGSRLRHKKVLLLIDDV----AD--VEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLH  159 (352)
Q Consensus        99 ~~~~~~~~~~~~~l~~~~~llvlDd~----~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~~  159 (352)
                      ...+++--.+.+.+...|-+|+-|+=    +.  ...+-.++..+.. ..+..||+.|-+..++...
T Consensus       144 SGGqqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         144 SGGQQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             CHHHHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHhC
Confidence            34455555666777788889999986    22  2223333333321 2366788888888776653

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=97.32  E-value=0.00052  Score=60.02  Aligned_cols=55  Identities=24%  Similarity=0.256  Sum_probs=47.0

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +...+.|+|-+..+.++.+.+.+    .+.+.+++.+.||.|.|||||+..+.+.+.+.
T Consensus        57 ~~f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   57 PFFEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             CCccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            44456899999999999999886    23457999999999999999999999888776

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

>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=97.31  E-value=0.0014  Score=52.52  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=22.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.++|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            46789999999999999999887655

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.30  E-value=0.0022  Score=51.24  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++.|.|+.|+|||||++.++-...
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~   53 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYD   53 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            347889999999999999999886543

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.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=97.30  E-value=0.0068  Score=50.13  Aligned_cols=148  Identities=16%  Similarity=0.254  Sum_probs=80.1

Q ss_pred             cccc-cHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677           11 LVGM-ESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus        11 ~vGR-~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      +||+ +..++++.+.+.-           +=..++-++++||+|+|||-||+.+++...      +|+..++.       
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~------c~firvsg-------  214 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTD------CTFIRVSG-------  214 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcc------eEEEEech-------
Confidence            4443 5566666665442           113457789999999999999999986533      23322211       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC--C
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW--F  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~--~  140 (352)
                       ..+....+    +...      .-.-+.+.-.-.+.+-+|+.|++++..                .+-+++..+.-  .
T Consensus       215 -selvqk~i----gegs------rmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  215 -SELVQKYI----GEGS------RMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             -HHHHHHHh----hhhH------HHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence             22222221    1111      011111222234678899999985421                13344444432  2


Q ss_pred             CCCceEEEEeCchh-----HhhhcCcccEEecCCCCHhHHHHHHHhh
Q 045677          141 GLGSMIIITTRDEH-----LLKLHRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       141 ~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      ..+.++|+.|..-.     +....+....++.++-+.+.-.+++.-.
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkih  330 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIH  330 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHh
Confidence            45677777654322     2222345566788887777767766544

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

Probab=97.30  E-value=0.0019  Score=51.07  Aligned_cols=60  Identities=17%  Similarity=0.123  Sum_probs=36.2

Q ss_pred             hhhhHHHHHhhhCCceEEEEEeCC----CChhhhhhhhCCCCCCCCCceEEEEeCchhHhhhcC
Q 045677          101 VYDGVNMIGSRLRHKKVLLLIDDV----ADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHR  160 (352)
Q Consensus       101 ~~~~~~~~~~~l~~~~~llvlDd~----~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~~~  160 (352)
                      .+++--.+.+..-++|-+++=|+-    +...+|+-+.-.-..+..|..|+++|-+..+...++
T Consensus       141 GEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         141 GEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             hHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            344444455556678899999986    333334332211112256889999999887766543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.30  E-value=0.0017  Score=55.70  Aligned_cols=116  Identities=16%  Similarity=0.122  Sum_probs=61.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC-------ccchh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS-------IRNVY  102 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-------~~~~~  102 (352)
                      .+...+.|.|++|+|||||++.++..+... ...+++. .......     +...++.......+...       .+...
T Consensus       109 ~~~~~~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~-g~~v~~~-----d~~~ei~~~~~~~~q~~~~~r~~v~~~~~  181 (270)
T TIGR02858       109 NRVLNTLIISPPQCGKTTLLRDLARILSTG-ISQLGLR-GKKVGIV-----DERSEIAGCVNGVPQHDVGIRTDVLDGCP  181 (270)
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHhCccCCC-CceEEEC-CEEeecc-----hhHHHHHHHhcccccccccccccccccch
Confidence            345678999999999999999999776543 2233332 1111110     00112221111101000       11111


Q ss_pred             hhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhH
Q 045677          103 DGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHL  155 (352)
Q Consensus       103 ~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~  155 (352)
                      .............+-++++|+....+.+..+...+.   .+..+|+|+-+..+
T Consensus       182 k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       182 KAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             HHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            111222222235788999999977776666655542   46678888875443

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.29  E-value=0.0026  Score=56.25  Aligned_cols=29  Identities=24%  Similarity=0.247  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.++.++|++|+||||++..++..+...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            35789999999999999999998877654

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.29  E-value=0.00062  Score=58.98  Aligned_cols=58  Identities=29%  Similarity=0.259  Sum_probs=45.4

Q ss_pred             CCCCCcCcccccHHHHH---HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677            4 ELEIPKELVGMESRLEK---LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~---l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      +-+..+.|||.....+.   +.+...++.-..+.|++.||+|+|||+||..+++.+..+-+
T Consensus        34 ~k~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          34 AKFIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             EeEcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            44567889999887764   45555654445689999999999999999999999887643

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.015  Score=50.23  Aligned_cols=138  Identities=9%  Similarity=0.057  Sum_probs=72.9

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS   97 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   97 (352)
                      ++|...+..+ .-++..+++|+.|+||+++|..+++.+-. .....+...  ....++ +. .        .+.......
T Consensus         7 ~~L~~~i~~~-rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~--~~~~HP-D~-~--------~i~p~~~~~   73 (290)
T PRK05917          7 EALIQRVRDQ-KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKI--SQKIHP-DI-H--------EFSPQGKGR   73 (290)
T ss_pred             HHHHHHHHcC-CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHH--hcCCCC-CE-E--------EEecCCCCC
Confidence            4555655532 23578889999999999999999987522 111000000  000000 00 0        000000000


Q ss_pred             ccchhhhHHHHHhhh-----CCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCc-hhHhhh-cCcccEEecC
Q 045677           98 IRNVYDGVNMIGSRL-----RHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRD-EHLLKL-HRVEEVYKLE  168 (352)
Q Consensus        98 ~~~~~~~~~~~~~~l-----~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~-~~~~~~-~~~~~~~~l~  168 (352)
                      .-.+++ +..+.+.+     .+..=++|||+++  +.+....++..+.+.+.++.+|++|.+ +.+.+. ...+..+.+.
T Consensus        74 ~I~idq-iR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~  152 (290)
T PRK05917         74 LHSIET-PRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIP  152 (290)
T ss_pred             cCcHHH-HHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEcc
Confidence            001111 12222222     2445589999997  456788888888877778877766665 444433 3445667777


Q ss_pred             CC
Q 045677          169 AL  170 (352)
Q Consensus       169 ~l  170 (352)
                      ++
T Consensus       153 ~~  154 (290)
T PRK05917        153 ME  154 (290)
T ss_pred             ch
Confidence            65

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.29  E-value=0.0008  Score=58.13  Aligned_cols=110  Identities=20%  Similarity=0.180  Sum_probs=61.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHH
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSD   89 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (352)
                      .+.-.....+.+.++|...-.....++|.|+.|+||||++..++..+.......+.+.+......             ..
T Consensus       105 ~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l-------------~~  171 (270)
T PF00437_consen  105 DLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRL-------------PG  171 (270)
T ss_dssp             CCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S---------------SC
T ss_pred             hccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceee-------------cc
Confidence            33333444455666555321234889999999999999999999877665222333321111100             00


Q ss_pred             HhcccCCCc-cchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhh
Q 045677           90 LLMLADNSI-RNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus        90 ~~~~~~~~~-~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l  133 (352)
                       ........ .......+.+...+...+=.++++++.+.+....+
T Consensus       172 -~~~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~  215 (270)
T PF00437_consen  172 -PNQIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAI  215 (270)
T ss_dssp             -SSEEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHH
T ss_pred             -cceEEEEeecCcccHHHHHHHHhcCCCCcccccccCCHhHHHHH
Confidence             00000001 23445566677788888889999999877766663

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>TIGR00416 sms DNA repair protein RadA

Probab=97.28  E-value=0.0016  Score=60.23  Aligned_cols=49  Identities=22%  Similarity=0.167  Sum_probs=34.3

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..|-+.|..+=....+++|.|++|+|||||+.+++...........|+.
T Consensus        81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3444444433344688999999999999999999887755544455554

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.27  E-value=0.0029  Score=51.09  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +|+|.|++|+||||+++.++....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999987653

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.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=97.27  E-value=0.0023  Score=54.56  Aligned_cols=30  Identities=37%  Similarity=0.497  Sum_probs=26.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+..+.|||++|.|||-+|+.++..+.-+|
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            467899999999999999999998877664

>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=97.26  E-value=0.0015  Score=50.60  Aligned_cols=25  Identities=32%  Similarity=0.531  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.+....
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            4688999999999999999987654

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.

>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=97.25  E-value=0.00074  Score=56.38  Aligned_cols=43  Identities=23%  Similarity=0.295  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +-.++.+.+....++..++.|+|+||+|||||+..+...+...
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            3455566555545567899999999999999999999887654

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.25  E-value=0.00068  Score=52.86  Aligned_cols=32  Identities=22%  Similarity=0.216  Sum_probs=27.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      .+..+++++|.+|+||||+|..+...+.....
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~   52 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGY   52 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCC
Confidence            44578999999999999999999999876643

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.25  E-value=0.00027  Score=53.34  Aligned_cols=22  Identities=45%  Similarity=0.712  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |+|.|.+|+||||+++++...+
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            6899999999999999999886

...

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.24  E-value=0.0023  Score=51.37  Aligned_cols=28  Identities=32%  Similarity=0.442  Sum_probs=24.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+++|.|++|+||||+++.++..+...
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~   31 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREA   31 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999887543

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

Probab=97.24  E-value=0.0011  Score=56.60  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=22.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +|+++|.+|+||||+|+.++..+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            47899999999999999999887543

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

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.24  E-value=0.00025  Score=54.52  Aligned_cols=23  Identities=43%  Similarity=0.541  Sum_probs=21.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      |+|+|++|+|||+|++.+++.+.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~   24 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG   24 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            78999999999999999999883

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.

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

Probab=97.23  E-value=0.0012  Score=56.37  Aligned_cols=95  Identities=23%  Similarity=0.134  Sum_probs=55.4

Q ss_pred             HHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHH-HhcccCCCccchh
Q 045677           24 LMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSD-LLMLADNSIRNVY  102 (352)
Q Consensus        24 ~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~  102 (352)
                      .|..+-+..+++=|+||.|+|||+++.+++-..+......+|+...+...      ..-...+... +....-....+.+
T Consensus        52 ~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~------p~r~~~l~~~~~d~l~v~~~~~~e  125 (279)
T COG0468          52 ALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALD------PERAKQLGVDLLDNLLVSQPDTGE  125 (279)
T ss_pred             HhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCCC------HHHHHHHHHhhhcceeEecCCCHH
Confidence            33333345678889999999999999999988777777778876332221      2233344433 2221122233333


Q ss_pred             hhHHHHHh---hhCCceEEEEEeCC
Q 045677          103 DGVNMIGS---RLRHKKVLLLIDDV  124 (352)
Q Consensus       103 ~~~~~~~~---~l~~~~~llvlDd~  124 (352)
                      +....+..   ...+.--|+|+|.+
T Consensus       126 ~q~~i~~~~~~~~~~~i~LvVVDSv  150 (279)
T COG0468         126 QQLEIAEKLARSGAEKIDLLVVDSV  150 (279)
T ss_pred             HHHHHHHHHHHhccCCCCEEEEecC
Confidence            33333333   33333569999998

>PRK06547 hypothetical protein; Provisional

Probab=97.23  E-value=0.00061  Score=54.28  Aligned_cols=28  Identities=36%  Similarity=0.319  Sum_probs=24.5

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .....+|.|.|++|+||||++..++...
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3566889999999999999999998874

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.22  E-value=0.00099  Score=53.38  Aligned_cols=120  Identities=12%  Similarity=-0.014  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHH-HHH---hcccCCCc-------cc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLL-SDL---LMLADNSI-------RN  100 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~---~~~~~~~~-------~~  100 (352)
                      ...|.|+|..|-||||.|.-.+.+...+...+..+.-+.... ..+. ...+..+- -.+   ........       ..
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~-~~GE-~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAW-STGE-RNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCC-ccCH-HHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            367899999999999999888877544433333332222110 1111 22222210 000   00000000       11


Q ss_pred             hhhhHHHHHhhhC-CceEEEEEeCCC-----ChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          101 VYDGVNMIGSRLR-HKKVLLLIDDVA-----DVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       101 ~~~~~~~~~~~l~-~~~~llvlDd~~-----~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ........++.+. +.-=++|||++-     ..-..+++...+...+....+|+|.|+.
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            1222333344443 455699999982     2222333333333346778999999965

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=97.21  E-value=0.0025  Score=51.62  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|.|++|+||||+++.+...+...
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~~~   45 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLESK   45 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999887543

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

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

Probab=97.21  E-value=0.0026  Score=50.96  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.|.|++|+||||+|+.+++++
T Consensus         3 iiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999884

>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=97.20  E-value=0.0022  Score=51.29  Aligned_cols=22  Identities=27%  Similarity=0.305  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      ..++.|.|+.|+|||||.+.+.
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4688999999999999999875

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.20  E-value=0.0041  Score=56.22  Aligned_cols=25  Identities=24%  Similarity=0.151  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+++|+|++|+||||++.+++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4678899999999999999998764

>PHA02244 ATPase-like protein

Probab=97.19  E-value=0.00047  Score=60.95  Aligned_cols=49  Identities=12%  Similarity=0.158  Sum_probs=34.9

Q ss_pred             CCcCcccccHHHHHH----HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            7 IPKELVGMESRLEKL----KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l----~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ....|+|+...+...    ..++..    ...|+|+|++|+|||+||..+++.+...
T Consensus        94 ~d~~~ig~sp~~~~~~~ri~r~l~~----~~PVLL~GppGtGKTtLA~aLA~~lg~p  146 (383)
T PHA02244         94 IDTTKIASNPTFHYETADIAKIVNA----NIPVFLKGGAGSGKNHIAEQIAEALDLD  146 (383)
T ss_pred             CCCcccCCCHHHHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            345677877666543    344442    2458899999999999999999886543

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=97.18  E-value=0.0023  Score=59.75  Aligned_cols=119  Identities=15%  Similarity=0.137  Sum_probs=66.7

Q ss_pred             ccccHH-HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH
Q 045677           12 VGMESR-LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL   90 (352)
Q Consensus        12 vGR~~~-l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   90 (352)
                      .|-..+ ++.+...+..   ...+++|+|+.|+||||++..+...+.......+.+.+.-...    . ..    + .+ 
T Consensus       224 Lg~~~~~~~~l~~~~~~---~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~----~-~~----~-~q-  289 (486)
T TIGR02533       224 LGMSPELLSRFERLIRR---PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQ----I-EG----I-GQ-  289 (486)
T ss_pred             cCCCHHHHHHHHHHHhc---CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeee----c-CC----C-ce-
Confidence            444443 3445554442   3368999999999999999988877654322333332111000    0 00    0 00 


Q ss_pred             hcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           91 LMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                         ..............++..+...+=+|++.++.+.+.....+....    -++.++||-
T Consensus       290 ---~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd~eta~~a~~aa~----tGHlvlsTl  343 (486)
T TIGR02533       290 ---IQVNPKIGLTFAAGLRAILRQDPDIIMVGEIRDLETAQIAIQASL----TGHLVLSTL  343 (486)
T ss_pred             ---EEEccccCccHHHHHHHHHhcCCCEEEEeCCCCHHHHHHHHHHHH----hCCcEEEEE
Confidence               000011113456677888888999999999988876555444321    235566664

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.18  E-value=0.00089  Score=64.16  Aligned_cols=62  Identities=21%  Similarity=0.330  Sum_probs=47.9

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeee
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLAD   68 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~   68 (352)
                      -|+..-+.++|.+..++.|...+...    +.++++|++|+|||++++.+++.+... +....|+.+
T Consensus        25 ~~~~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n   87 (637)
T PRK13765         25 VPERLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN   87 (637)
T ss_pred             cCcccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence            35566677899999999998877743    478999999999999999999876433 355566653

>COG4240 Predicted kinase [General function prediction only]

Probab=97.18  E-value=0.0012  Score=53.65  Aligned_cols=89  Identities=17%  Similarity=0.154  Sum_probs=51.5

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMI  108 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (352)
                      .+++-++.|.||.|+||||++..+...+.+.+...+....+.+...+...-..+.+++-.-+.........+.....+.+
T Consensus        47 ~grPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnVL  126 (300)
T COG4240          47 RGRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNVL  126 (300)
T ss_pred             cCCceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHHH
Confidence            34567888999999999999999999887776323333334444443333223333331112222233344555566666


Q ss_pred             HhhhCCceE
Q 045677          109 GSRLRHKKV  117 (352)
Q Consensus       109 ~~~l~~~~~  117 (352)
                      ....++++.
T Consensus       127 nai~~g~~~  135 (300)
T COG4240         127 NAIARGGPT  135 (300)
T ss_pred             HHHhcCCCC
Confidence            666666544

>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=97.18  E-value=0.002  Score=51.60  Aligned_cols=25  Identities=40%  Similarity=0.666  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++-..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4688999999999999999988654

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

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.18  E-value=0.018  Score=51.09  Aligned_cols=55  Identities=22%  Similarity=0.125  Sum_probs=37.8

Q ss_pred             cccEEecCCCCHhHHHHHHHhhh----cCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          161 VEEVYKLEALNFDEAFRLFCLKA----FDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       161 ~~~~~~l~~l~~~e~~~ll~~~~----~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      ...++++++++.+|+..++.-..    .....+   .++..++++-.+.|||..++.++..+
T Consensus       402 pf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~---~Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  402 PFVPIEVENYTLDEFEALIDYYLQSNWLLKKVP---GEENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             CcCccccCCCCHHHHHHHHHHHHHhhHHHhhcC---cccchhhhhhhcCCCHHHHHHHHHhc
Confidence            34578999999999988765332    111111   14567788888899998887777654

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

Probab=97.18  E-value=0.0047  Score=53.41  Aligned_cols=37  Identities=19%  Similarity=0.011  Sum_probs=28.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      ...+++|.|++|+|||+|+.+++...... ...+.|++
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            34688999999999999999998876444 44455554

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

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.17  E-value=0.0041  Score=54.28  Aligned_cols=41  Identities=22%  Similarity=0.230  Sum_probs=31.4

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHH
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      .-+|..+-.--.++|.  .++..+|.+.|.+|+|||-||....
T Consensus       226 i~prn~eQ~~ALdlLl--d~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         226 IRPRNAEQRVALDLLL--DDDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             cCcccHHHHHHHHHhc--CCCCCeEEeeccCCccHhHHHHHHH
Confidence            4566767666666666  5678999999999999998885544

>PRK07261 topology modulation protein; Provisional

Probab=97.17  E-value=0.00034  Score=55.85  Aligned_cols=23  Identities=43%  Similarity=0.580  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      -|+|+|++|+||||||+++....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            37899999999999999988764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.16  E-value=0.0062  Score=54.97  Aligned_cols=27  Identities=26%  Similarity=0.303  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++++++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999999999988764

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

Probab=97.16  E-value=0.00099  Score=56.01  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...+.+...+...    .+.+|+||+|+|||+++..+...+
T Consensus         5 ~Q~~Ai~~~~~~~----~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    5 SQREAIQSALSSN----GITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHHCTSS----E-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC----CCEEEECCCCCChHHHHHHHHHHh
Confidence            3445555555522    378899999999999888888776

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.16  E-value=0.0042  Score=61.10  Aligned_cols=104  Identities=14%  Similarity=0.201  Sum_probs=63.0

Q ss_pred             CcCcccccHHHHHHHHHHhcC-----C-CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTG-----S-NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-----~-~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      ....+|.+..+..+.+.+...     + ....+.++.||.|+|||.||+.++..+.......+-+. ++.          
T Consensus       561 ~~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD-mse----------  629 (898)
T KOG1051|consen  561 HERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD-MSE----------  629 (898)
T ss_pred             HhhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec-hhh----------
Confidence            345688888899988877741     1 13567789999999999999999998855554444443 211          


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCce-EEEEEeCCCC
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKK-VLLLIDDVAD  126 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~llvlDd~~~  126 (352)
                      ...  ...+.+.++  .-........+-+.++.+| .+|+|||++.
T Consensus       630 ~~e--vskligsp~--gyvG~e~gg~LteavrrrP~sVVLfdeIEk  671 (898)
T KOG1051|consen  630 FQE--VSKLIGSPP--GYVGKEEGGQLTEAVKRRPYSVVLFEEIEK  671 (898)
T ss_pred             hhh--hhhccCCCc--ccccchhHHHHHHHHhcCCceEEEEechhh
Confidence            111  222222111  1111222334555666554 5888999964

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

Probab=97.15  E-value=0.00043  Score=46.00  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ++|.|++|+||||+++.+...+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999887

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.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.14  E-value=0.0012  Score=52.65  Aligned_cols=41  Identities=24%  Similarity=0.275  Sum_probs=29.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc-CCCcceeEeeecccccc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS-HEFDGSSFLADVRERCD   74 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~~~~~~~~~~~~~   74 (352)
                      ..+++.||+|+|||.||+.+++.+. ......+ ..++...+.
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~-~~d~s~~~~   45 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLI-RIDMSEYSE   45 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEE-EEEGGGHCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhccCCccchH-HHhhhcccc
Confidence            5688999999999999999999877 4433333 334444433

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.14  E-value=0.0022  Score=49.74  Aligned_cols=25  Identities=40%  Similarity=0.537  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .-.+.|+||+|+|||||.+.++.-.
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhcc
Confidence            3568899999999999999998743

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

Probab=97.14  E-value=0.0019  Score=52.36  Aligned_cols=92  Identities=21%  Similarity=0.174  Sum_probs=49.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhccc-CCCccchhhhHHHHHhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLA-DNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  111 (352)
                      ..+.|.|+.|+||||+++.+...+.... ..+.+.+.........       .. ..+.... ...........+.+...
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i~~~~-~~i~ied~~E~~~~~~-------~~-~~~~~~~~~~~~~~~~~~~~~l~~~   96 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFIPPDE-RIITIEDTAELQLPHP-------NW-VRLVTRPGNVEGSGEVTMADLLRSA   96 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcCCCC-CEEEECCccccCCCCC-------CE-EEEEEecCCCCCCCccCHHHHHHHH
Confidence            6799999999999999999887765332 2232221111100000       00 0000000 00011122344555666


Q ss_pred             hCCceEEEEEeCCCChhhhhhh
Q 045677          112 LRHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       112 l~~~~~llvlDd~~~~~~~~~l  133 (352)
                      +...+-.++++++.+.+.+..+
T Consensus        97 lR~~pd~i~igEir~~ea~~~~  118 (186)
T cd01130          97 LRMRPDRIIVGEVRGGEALDLL  118 (186)
T ss_pred             hccCCCEEEEEccCcHHHHHHH
Confidence            6777889999999877665533

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

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

Probab=97.14  E-value=0.00046  Score=56.41  Aligned_cols=26  Identities=42%  Similarity=0.634  Sum_probs=23.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +|.|.|++|+||||||+.+...+...
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            58899999999999999999998755

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 ....

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.13  E-value=0.0028  Score=56.72  Aligned_cols=27  Identities=22%  Similarity=0.214  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++.++||+|+||||++..++....
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~  162 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCV  162 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999999999998754

>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=97.12  E-value=0.0023  Score=51.24  Aligned_cols=25  Identities=36%  Similarity=0.526  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++--.
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3689999999999999999887644

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.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.12  E-value=0.00056  Score=58.85  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +.|+++|++|+|||++++.+...+..
T Consensus        34 ~pvLl~G~~GtGKT~li~~~l~~l~~   59 (272)
T PF12775_consen   34 RPVLLVGPSGTGKTSLIQNFLSSLDS   59 (272)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred             CcEEEECCCCCchhHHHHhhhccCCc
Confidence            67899999999999999998876543

>PF13245 AAA_19: Part of AAA domain

Probab=97.12  E-value=0.00053  Score=46.40  Aligned_cols=24  Identities=25%  Similarity=0.177  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +++.|.|++|+|||+++...+..+
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            677889999999996666655543

>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=97.12  E-value=0.00033  Score=51.94  Aligned_cols=28  Identities=32%  Similarity=0.494  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCCCcc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHEFDG   62 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~~~~   62 (352)
                      |+|+|.+|+|||++|+.++..+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeE
Confidence            7899999999999999999998877643

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.11  E-value=0.00095  Score=56.11  Aligned_cols=32  Identities=31%  Similarity=0.431  Sum_probs=27.1

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .++..++.|.|++|+|||||++.+...+....
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~   61 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQDG   61 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhcc
Confidence            35578899999999999999999998876553

>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=97.10  E-value=0.0006  Score=54.07  Aligned_cols=24  Identities=42%  Similarity=0.487  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++|+|++|+|||||+..+++.++.
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            689999999999999999988754

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.

>PRK10436 hypothetical protein; Provisional

Probab=97.10  E-value=0.0036  Score=57.91  Aligned_cols=120  Identities=13%  Similarity=0.120  Sum_probs=67.5

Q ss_pred             ccccH-HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH
Q 045677           12 VGMES-RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL   90 (352)
Q Consensus        12 vGR~~-~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   90 (352)
                      .|-.. .++.+.+.+..   ...+++|+|+.|+||||.+..+...+.......+-+.+.     ....    +.. .   
T Consensus       200 LG~~~~~~~~l~~~~~~---~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDP-----vE~~----l~g-i---  263 (462)
T PRK10436        200 LGMTPAQLAQFRQALQQ---PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDP-----VEIP----LAG-I---  263 (462)
T ss_pred             cCcCHHHHHHHHHHHHh---cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCC-----cccc----CCC-c---
Confidence            34433 34455555542   347899999999999999888777764432222222211     1100    000 0   


Q ss_pred             hcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677           91 LMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                       ................++..+...|=+|++.++.+.+.....+....    -++.++||-.
T Consensus       264 -~Q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEIRD~eta~~al~AA~----TGHlVlsTlH  320 (462)
T PRK10436        264 -NQTQIHPKAGLTFQRVLRALLRQDPDVIMVGEIRDGETAEIAIKAAQ----TGHLVLSTLH  320 (462)
T ss_pred             -ceEeeCCccCcCHHHHHHHHhcCCCCEEEECCCCCHHHHHHHHHHHH----cCCcEEEeec
Confidence             00001111223466778888889999999999988776654443321    2355776653

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.09  E-value=0.0012  Score=52.22  Aligned_cols=114  Identities=17%  Similarity=0.212  Sum_probs=55.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      ..++.|.|+.|+|||||++.++-... .....+++... ..... .. ....   .....-..  .....+...-.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~-~~~G~v~~~g~-~~~~~-~~-~~~~---~~~i~~~~--qLS~G~~qrl~lara   96 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYK-PDSGEILVDGK-EVSFA-SP-RDAR---RAGIAMVY--QLSVGERQMVEIARA   96 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC-CCCeEEEECCE-ECCcC-CH-HHHH---hcCeEEEE--ecCHHHHHHHHHHHH
Confidence            46889999999999999998875543 22334444321 11110 00 0100   00000000  022222223334445


Q ss_pred             hCCceEEEEEeCCC---ChhhhhhhhCCCCCC-CCCceEEEEeCchh
Q 045677          112 LRHKKVLLLIDDVA---DVEQLRGLFGKRDWF-GLGSMIIITTRDEH  154 (352)
Q Consensus       112 l~~~~~llvlDd~~---~~~~~~~l~~~~~~~-~~~~~iiitsr~~~  154 (352)
                      +...+-++++|+-.   +....+.+...+... ..+..+|++|.+..
T Consensus        97 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216          97 LARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             HhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            56678899999983   333333332222111 23556777777654

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.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.09  E-value=0.0056  Score=56.00  Aligned_cols=115  Identities=17%  Similarity=0.124  Sum_probs=68.6

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS   97 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   97 (352)
                      .+.+.+++.   .+..+++++||.|+||||....+...+......++-+.+.-... .++.             ......
T Consensus       247 ~~~~~~~~~---~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~-~~gI-------------~Q~qVN  309 (500)
T COG2804         247 LARLLRLLN---RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQ-LPGI-------------NQVQVN  309 (500)
T ss_pred             HHHHHHHHh---CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeee-cCCc-------------ceeecc
Confidence            445555555   34589999999999999999999888766655444433210000 0000             000111


Q ss_pred             ccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677           98 IRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus        98 ~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ....-.....++..+++.|=+|++.++.|.+.-+......    .-++.|+||-..
T Consensus       310 ~k~gltfa~~LRa~LRqDPDvImVGEIRD~ETAeiavqAa----lTGHLVlSTlHt  361 (500)
T COG2804         310 PKIGLTFARALRAILRQDPDVIMVGEIRDLETAEIAVQAA----LTGHLVLSTLHT  361 (500)
T ss_pred             cccCCCHHHHHHHHhccCCCeEEEeccCCHHHHHHHHHHH----hcCCeEeeeccc
Confidence            1122234566777888888899999998776644444331    234677777543

>PRK08233 hypothetical protein; Provisional

Probab=97.09  E-value=0.00051  Score=55.47  Aligned_cols=26  Identities=31%  Similarity=0.373  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+|+|.|++|+|||||+..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            37899999999999999999998764

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=97.09  E-value=0.078  Score=45.92  Aligned_cols=68  Identities=19%  Similarity=0.213  Sum_probs=47.2

Q ss_pred             CceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hHhhhc-CcccEEecCCCCHhHHHHHHHhh
Q 045677          114 HKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKLH-RVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       114 ~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~~-~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      +.+-++|||+++.  ......++..+.+.+.++.+|++|.+. .+.+.. .....+.+.+ +.++..+++...
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~~  174 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQK  174 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHHc
Confidence            4556999999974  456888888888777777777766543 444443 3456778876 777777777644

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.08  E-value=0.00053  Score=56.84  Aligned_cols=23  Identities=22%  Similarity=0.125  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .+.++|+|+.|.|||||++.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            38899999999999999999874

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.08  E-value=0.00073  Score=60.72  Aligned_cols=54  Identities=22%  Similarity=0.365  Sum_probs=41.6

Q ss_pred             CCcCcccccHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            7 IPKELVGMESRLEKLKFLMCTG------------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~------------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +..+++|.+...+.+...+...            .-.++-++++||+|+|||++|+.++..+...|
T Consensus        10 Ld~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~f   75 (441)
T TIGR00390        10 LDKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   75 (441)
T ss_pred             HhhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            4567899999999887666631            11236789999999999999999998875543

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.

>PRK15115 response regulator GlrR; Provisional

Probab=97.08  E-value=0.011  Score=55.09  Aligned_cols=49  Identities=18%  Similarity=0.156  Sum_probs=36.5

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|+...+..+.+....-......|+|+|++|+|||++|+.+.....
T Consensus       134 ~~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~  182 (444)
T PRK15115        134 EAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASP  182 (444)
T ss_pred             hcccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcC
Confidence            3578888888777665554233346688999999999999998877644

>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=97.07  E-value=0.00086  Score=52.30  Aligned_cols=36  Identities=28%  Similarity=0.404  Sum_probs=30.0

Q ss_pred             cHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           15 ESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        15 ~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...+++|.+++..     +.+++.|++|+|||||++.+...
T Consensus        23 ~~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   23 GEGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhh
Confidence            3457888888872     68899999999999999998854

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.06  E-value=0.0013  Score=55.69  Aligned_cols=49  Identities=12%  Similarity=0.097  Sum_probs=35.1

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..|-+.|..+=....+++|.|++|+|||+|+.+++....+....++|+.
T Consensus         8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            3445555544445689999999999999999998876444455566664

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=97.06  E-value=0.0026  Score=56.22  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=21.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +++.|.+|+||||+++.+...+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~   25 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRR   25 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHh
Confidence            679999999999999999988753

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.06  E-value=0.0044  Score=54.43  Aligned_cols=36  Identities=19%  Similarity=0.240  Sum_probs=26.4

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .|-+.|..+=....++-|+|++|+|||+|+.+++-.
T Consensus        84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~  119 (313)
T TIGR02238        84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVT  119 (313)
T ss_pred             HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            344445433345688889999999999999988754

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=97.06  E-value=0.0053  Score=48.54  Aligned_cols=25  Identities=28%  Similarity=0.213  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.+|+|+.|+|||||+..++-.
T Consensus        36 ~apIT~i~GENGsGKSTLLEaiA~~   60 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAIAAG   60 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHHHhh
Confidence            4589999999999999999988764

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.06  E-value=0.0033  Score=55.51  Aligned_cols=37  Identities=22%  Similarity=0.242  Sum_probs=27.5

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.+.|..+=....++.|+|++|+|||+|+.+++....
T Consensus        84 lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~  120 (310)
T TIGR02236        84 LDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQ  120 (310)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3344443223468888999999999999999987754

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.

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

Probab=97.06  E-value=0.0012  Score=56.08  Aligned_cols=43  Identities=23%  Similarity=0.305  Sum_probs=34.7

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      .+|...+....++..++.|+|+||+|||||...+...+.++..
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~   80 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGH   80 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCc
Confidence            4555555555677889999999999999999999998876654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.05  E-value=0.0078  Score=53.65  Aligned_cols=36  Identities=25%  Similarity=0.279  Sum_probs=27.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +.++++|+|+.|+||||++..++..+......+.++
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lI  240 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFI  240 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            468899999999999999999988764443333333

>PTZ00301 uridine kinase; Provisional

Probab=97.04  E-value=0.00066  Score=55.90  Aligned_cols=28  Identities=29%  Similarity=0.455  Sum_probs=24.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +.+|.|.|++|+||||||+.+.+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~   30 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAH   30 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence            4789999999999999999998876443

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.04  E-value=0.0021  Score=60.26  Aligned_cols=50  Identities=20%  Similarity=0.145  Sum_probs=37.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +..|-+.|..+=....+++|.|++|+|||+|+.+++....++...+.|+.
T Consensus       249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            45566666654455688999999999999999999988755555555554

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

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

Probab=97.03  E-value=0.0017  Score=55.44  Aligned_cols=25  Identities=28%  Similarity=0.186  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++=|+|++|+|||.|+.+++-..
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~   62 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNV   62 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEEecccccchHHHHHHHHh
Confidence            4567799999999999999987653

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 ....

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.03  E-value=0.0011  Score=56.69  Aligned_cols=37  Identities=16%  Similarity=0.166  Sum_probs=29.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|+|++|+|||+|+.+++.........++|+.
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            4688999999999999999998877544444556654

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

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.03  E-value=0.0056  Score=52.73  Aligned_cols=36  Identities=28%  Similarity=0.303  Sum_probs=27.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +.+++.++|++|+||||.+..++..+.... ..+.+.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g-~~V~li  106 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQG-KSVLLA  106 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcC-CEEEEE
Confidence            457888999999999999999998876553 334443

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.03  E-value=0.002  Score=58.10  Aligned_cols=40  Identities=15%  Similarity=0.179  Sum_probs=29.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +.+.+.+..  ..+..++|.|+||+|||+|.+.+...++...
T Consensus        11 ~~v~~~~~~--~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~   50 (364)
T PF05970_consen   11 DTVIEAIEN--EEGLNFFVTGPAGTGKSFLIKAIIDYLRSRG   50 (364)
T ss_pred             HHHHHHHHc--cCCcEEEEEcCCCCChhHHHHHHHHHhcccc
Confidence            344444442  3457889999999999999999998876643

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

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

Probab=97.02  E-value=0.00075  Score=54.74  Aligned_cols=33  Identities=21%  Similarity=0.089  Sum_probs=26.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ++|.|++|+|||+|+.+++....+......|+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            689999999999999999887655545555554

A related protein is found in archaea.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.02  E-value=0.00079  Score=55.74  Aligned_cols=27  Identities=41%  Similarity=0.592  Sum_probs=24.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++.+|.|.|++|+|||||+..+...+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356889999999999999999999877

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.02  E-value=0.0032  Score=55.67  Aligned_cols=38  Identities=21%  Similarity=0.236  Sum_probs=27.8

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.+.|..+=....++.|+|++|+|||+|+.+++....
T Consensus        90 ~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~  127 (317)
T PRK04301         90 ELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQ  127 (317)
T ss_pred             HHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhc
Confidence            34444443223468888999999999999999987643

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

Probab=97.01  E-value=0.0012  Score=59.46  Aligned_cols=54  Identities=22%  Similarity=0.354  Sum_probs=42.0

Q ss_pred             CCcCcccccHHHHHHHHHHhcC--------C----CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            7 IPKELVGMESRLEKLKFLMCTG--------S----NDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~--------~----~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +..+++|.+...+.+..++...        .    -..+.++++||+|+|||++|+.++..+...|
T Consensus        13 Ld~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~f   78 (443)
T PRK05201         13 LDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (443)
T ss_pred             hccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChh
Confidence            4567899999999998877530        0    1136789999999999999999998875443

>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=97.01  E-value=0.0032  Score=50.41  Aligned_cols=25  Identities=36%  Similarity=0.644  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++-..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999887643

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.

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

Probab=97.01  E-value=0.0015  Score=56.09  Aligned_cols=45  Identities=20%  Similarity=0.113  Sum_probs=34.9

Q ss_pred             HHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           23 FLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        23 ~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +.+..+=+...+++|+|++|+|||+|+.+++....+....++|+.
T Consensus        14 ~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          14 EILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            333433345689999999999999999999999777766666665

>PRK10867 signal recognition particle protein; Provisional

Probab=97.01  E-value=0.0039  Score=57.08  Aligned_cols=29  Identities=28%  Similarity=0.341  Sum_probs=24.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.+++++|++|+||||++..++..+...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            36789999999999999999998877555

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.01  E-value=0.002  Score=61.91  Aligned_cols=61  Identities=21%  Similarity=0.347  Sum_probs=45.9

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      -|...-+.++|.+..++.+...+..+    +.+.++|++|+|||++++.++..+... +....++.
T Consensus        12 ~~~~~~~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~   73 (608)
T TIGR00764        12 VPERLIDQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP   73 (608)
T ss_pred             cchhhHhhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe
Confidence            34455677899999998888877743    367799999999999999999887554 23344444

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

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=97.00  E-value=0.0011  Score=58.94  Aligned_cols=49  Identities=31%  Similarity=0.387  Sum_probs=40.1

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ...++|++..+..+...+..+    +.+++.|++|+|||+||+.++..+...|
T Consensus        23 ~~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~   71 (329)
T COG0714          23 EKVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPF   71 (329)
T ss_pred             CCeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCe
Confidence            344899998888877777643    5688999999999999999999988554

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.98  E-value=0.00074  Score=55.71  Aligned_cols=31  Identities=16%  Similarity=0.205  Sum_probs=24.6

Q ss_pred             HhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           25 MCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        25 l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-.+....++++|+|++|+|||||+..+...
T Consensus         6 ~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          6 LFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             ccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3334456788999999999999999988643

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

Probab=96.98  E-value=0.0083  Score=53.54  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++.++||.|+||||-..+++.+..
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~  228 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYV  228 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            69999999999999977777666643

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.98  E-value=0.003  Score=56.54  Aligned_cols=108  Identities=17%  Similarity=0.118  Sum_probs=59.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCc---ceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFD---GSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMI  108 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (352)
                      ...|+|+|+.|+||||+++.++..+.....   ..+...+.-..     ...... ... ...... ............+
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~-----~~~~~~-~~~-~~v~Q~-~v~~~~~~~~~~l  205 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF-----VYDEIE-TIS-ASVCQS-EIPRHLNNFAAGV  205 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE-----eccccc-ccc-ceeeee-eccccccCHHHHH
Confidence            478999999999999999999887644322   12222211110     000000 000 000000 0111223455666


Q ss_pred             HhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677          109 GSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       109 ~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      +..+...|-.+++.++.+.+.....+....    -++.++||=
T Consensus       206 ~~aLR~~Pd~i~vGEiRd~et~~~al~aa~----tGh~v~tTl  244 (358)
T TIGR02524       206 RNALRRKPHAILVGEARDAETISAALEAAL----TGHPVYTTL  244 (358)
T ss_pred             HHHhccCCCEEeeeeeCCHHHHHHHHHHHH----cCCcEEEee
Confidence            778888999999999988877765544422    224466664

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.97  E-value=0.0024  Score=57.29  Aligned_cols=95  Identities=23%  Similarity=0.200  Sum_probs=54.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeE-eeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSF-LADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ..++|+|+.|+||||+++.++..+.... ...++ +.+.-..... .. .    .+..  .... .-..+.......++.
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~-~~-~----~~~~--~~q~-evg~~~~~~~~~l~~  220 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILG-SP-D----DLLP--PAQS-QIGRDVDSFANGIRL  220 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccC-CC-c----eeec--cccc-ccCCCccCHHHHHHH
Confidence            5788999999999999999988764332 22222 2211110000 00 0    0000  0000 001122345667778


Q ss_pred             hhCCceEEEEEeCCCChhhhhhhhCC
Q 045677          111 RLRHKKVLLLIDDVADVEQLRGLFGK  136 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~~~~l~~~  136 (352)
                      .++..|=+|+++++.+.+..+..+..
T Consensus       221 aLR~~PD~I~vGEiRd~et~~~al~a  246 (372)
T TIGR02525       221 ALRRAPKIIGVGEIRDLETFQAAVLA  246 (372)
T ss_pred             hhccCCCEEeeCCCCCHHHHHHHHHH
Confidence            88889999999999888877755444

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

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

Probab=96.97  E-value=0.00095  Score=53.99  Aligned_cols=35  Identities=29%  Similarity=0.343  Sum_probs=29.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      .++++|+||+|+|||+|+..++......|...+..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~   36 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSH   36 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceee
Confidence            37889999999999999999999988777544444

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 ....

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

Probab=96.96  E-value=0.0023  Score=49.89  Aligned_cols=20  Identities=35%  Similarity=0.348  Sum_probs=18.4

Q ss_pred             EEcCCCCcHHHHHHHHHHHh
Q 045677           37 IWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        37 I~G~~GiGKT~La~~~~~~~   56 (352)
                      |.|+||+||||++..++.+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

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

>PRK04040 adenylate kinase; Provisional

Probab=96.96  E-value=0.00098  Score=54.01  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=23.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|+|.+|+||||+++.+.+.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            6789999999999999999998875

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.96  E-value=0.002  Score=47.66  Aligned_cols=48  Identities=19%  Similarity=0.319  Sum_probs=33.0

Q ss_pred             cCcccccHHHHHH----HHHHhcCCCC-eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            9 KELVGMESRLEKL----KFLMCTGSND-VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         9 ~~~vGR~~~l~~l----~~~l~~~~~~-~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++|..-..+.+    ...+.+..++ +-++.++|++|+|||.+++.+++.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            4567766555444    4455444444 3445689999999999999999874

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PTZ00035 Rad51 protein; Provisional

Probab=96.96  E-value=0.0043  Score=55.10  Aligned_cols=38  Identities=21%  Similarity=0.211  Sum_probs=27.8

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|-+.|..+=....++.|+|++|+|||+|+.+++-..+
T Consensus       106 ~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~q  143 (337)
T PTZ00035        106 QLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQ  143 (337)
T ss_pred             HHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhc
Confidence            44444543334568899999999999999998876543

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.94  E-value=0.00091  Score=53.67  Aligned_cols=26  Identities=27%  Similarity=0.450  Sum_probs=23.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +++++.|++|+||||+++.+......
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~   28 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAE   28 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCC
Confidence            68999999999999999999887543

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

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.94  E-value=0.0024  Score=56.61  Aligned_cols=34  Identities=24%  Similarity=0.152  Sum_probs=25.1

Q ss_pred             HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           22 KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        22 ~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -+.|..+=....++-|+|++|+|||+|+.+++-.
T Consensus       116 D~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~  149 (344)
T PLN03187        116 DELLGGGIETRCITEAFGEFRSGKTQLAHTLCVT  149 (344)
T ss_pred             HhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHH
Confidence            3334432234678889999999999999998754

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.94  E-value=0.0011  Score=52.44  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+++|+||+|+|||||++.+..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4789999999999999999999776

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.94  E-value=0.00085  Score=54.47  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++++|.|++|+||||+++.++..+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999999765

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.93  E-value=0.0054  Score=50.09  Aligned_cols=26  Identities=27%  Similarity=0.268  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|.|+.|+|||||++.++-..
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34789999999999999999987654

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.93  E-value=0.00093  Score=54.50  Aligned_cols=26  Identities=35%  Similarity=0.268  Sum_probs=22.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .++.|.|++|+|||+++.+++..+..
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~   58 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALAT   58 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            58899999999999999999887643

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

Probab=96.93  E-value=0.0023  Score=60.93  Aligned_cols=52  Identities=17%  Similarity=0.169  Sum_probs=43.6

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .++..+.|..-.+.|.++...+.....+++|+|.+|+||||+++.++..+..
T Consensus       367 ~pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        367 EIPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             CCChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            4667788888888888887776666678999999999999999999998865

>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=96.93  E-value=0.0046  Score=54.04  Aligned_cols=101  Identities=21%  Similarity=0.161  Sum_probs=53.9

Q ss_pred             HHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCc
Q 045677           20 KLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSI   98 (352)
Q Consensus        20 ~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~   98 (352)
                      .|-..|. .+-+..+++-|+|++|+|||||+..+....++.....+|+. .     ...+-...++.+--.+...--..+
T Consensus        40 ~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID-~-----e~~ld~~~a~~lGvdl~rllv~~P  113 (322)
T PF00154_consen   40 ALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFID-A-----EHALDPEYAESLGVDLDRLLVVQP  113 (322)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEE-S-----SS---HHHHHHTT--GGGEEEEE-
T ss_pred             ccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEec-C-----cccchhhHHHhcCccccceEEecC
Confidence            3444444 22234578999999999999999999888766655566664 1     111112222232222111111123


Q ss_pred             cchhhhHHHHHhhhC-CceEEEEEeCCCC
Q 045677           99 RNVYDGVNMIGSRLR-HKKVLLLIDDVAD  126 (352)
Q Consensus        99 ~~~~~~~~~~~~~l~-~~~~llvlDd~~~  126 (352)
                      +..++..+.....++ +.--++|+|-+..
T Consensus       114 ~~~E~al~~~e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  114 DTGEQALWIAEQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             SSHHHHHHHHHHHHHTTSESEEEEE-CTT
T ss_pred             CcHHHHHHHHHHHhhcccccEEEEecCcc
Confidence            445555565555554 3445889999844

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 ....

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.92  E-value=0.0087  Score=52.30  Aligned_cols=88  Identities=22%  Similarity=0.256  Sum_probs=51.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ..++|.|+.|+||||+++.++..+...  ....+.+.+..........          .......   .........+..
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~----------~v~~~~~---~~~~~~~~~l~~  199 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPN----------VVQLRTS---DDAISMTRLLKA  199 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCC----------EEEEEec---CCCCCHHHHHHH
Confidence            567899999999999999999887543  2223333222111100000          0000000   111145567777


Q ss_pred             hhCCceEEEEEeCCCChhhhhhh
Q 045677          111 RLRHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~~~~l  133 (352)
                      .++..+=.||+.++.+.+.+..+
T Consensus       200 aLR~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       200 TLRLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             HhcCCCCEEEEeccCCHHHHHHH
Confidence            88888889999999877766543

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.92  E-value=0.0009  Score=53.56  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|+|++|+||||++..++..+.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            36799999999999999999998874

>TIGR00235 udk uridine kinase

Probab=96.92  E-value=0.0011  Score=54.79  Aligned_cols=28  Identities=43%  Similarity=0.585  Sum_probs=24.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +...++.|.|++|+|||||++.+...+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3458899999999999999999987765

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

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.0046  Score=54.77  Aligned_cols=31  Identities=29%  Similarity=0.411  Sum_probs=25.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ...+-+++|||+|+|||-+|++++.+-.-+|
T Consensus       382 apfRNilfyGPPGTGKTm~ArelAr~SGlDY  412 (630)
T KOG0742|consen  382 APFRNILFYGPPGTGKTMFARELARHSGLDY  412 (630)
T ss_pred             chhhheeeeCCCCCCchHHHHHHHhhcCCce
Confidence            4467899999999999999999997765554

>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=96.92  E-value=0.003  Score=52.09  Aligned_cols=27  Identities=33%  Similarity=0.589  Sum_probs=23.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +-+.|.|++|+|||+|+.+++......
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~~d   42 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQDAD   42 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCTTT
T ss_pred             CEEEEEcCcccccchhhHHHHhccccc
Confidence            567899999999999999999887544

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 ....

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=96.92  E-value=0.015  Score=54.51  Aligned_cols=49  Identities=24%  Similarity=0.232  Sum_probs=37.5

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|....+.++.+.+.........++|.|++|+||+++|+.+.....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~  182 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSP  182 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCC
Confidence            3588888888888777665333445688999999999999988876544

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK03839 putative kinase; Provisional

Probab=96.91  E-value=0.00091  Score=53.93  Aligned_cols=25  Identities=32%  Similarity=0.542  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .|+|.|++|+||||+++.+++.+.-
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999988653

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.045  Score=45.72  Aligned_cols=48  Identities=21%  Similarity=0.380  Sum_probs=34.5

Q ss_pred             CcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           10 ELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..=|-+..+++|.+.+--           +-..++-|+.|||+|+|||-+|+..+.+..
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~  230 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN  230 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc
Confidence            345777888888765431           112356789999999999999998776543

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.014  Score=49.54  Aligned_cols=49  Identities=29%  Similarity=0.412  Sum_probs=36.5

Q ss_pred             cccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           11 LVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .=|-++.++++.+-..-           +-..++-|.+||++|+|||-||+.+++.....
T Consensus       187 iGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT  246 (440)
T KOG0726|consen  187 IGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT  246 (440)
T ss_pred             cccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh
Confidence            45678888888876552           11345678899999999999999999765443

>PRK05973 replicative DNA helicase; Provisional

Probab=96.89  E-value=0.0019  Score=54.02  Aligned_cols=37  Identities=16%  Similarity=0.004  Sum_probs=28.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +..+++|.|++|+|||+|+.+++.....+...++|+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4578999999999999999999887644444455554

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.89  E-value=0.0063  Score=49.77  Aligned_cols=101  Identities=19%  Similarity=0.211  Sum_probs=53.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCC----CcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC-------ccchhh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHE----FDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS-------IRNVYD  103 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-------~~~~~~  103 (352)
                      .+|.||+|+|||||.+.+++-+...    ....+-+.+-++             +++..+.+.+.-.       .+....
T Consensus       140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers-------------EIag~~~gvpq~~~g~R~dVld~cpk  206 (308)
T COG3854         140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS-------------EIAGCLNGVPQHGRGRRMDVLDPCPK  206 (308)
T ss_pred             eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc-------------hhhccccCCchhhhhhhhhhcccchH
Confidence            7799999999999999999876544    222232322211             1111100100000       011111


Q ss_pred             hHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677          104 GVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       104 ~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      ..-++...-+..|=++|+|++-..++...++..+   ..|.++|.|.-
T Consensus       207 ~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaH  251 (308)
T COG3854         207 AEGMMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAH  251 (308)
T ss_pred             HHHHHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeec
Confidence            1122222224567899999997666655555543   35777776654

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.89  E-value=0.0032  Score=51.62  Aligned_cols=37  Identities=19%  Similarity=0.207  Sum_probs=28.1

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..+.+++|+|.+|+|||||++.+...+.......+++
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l   58 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL   58 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            3457899999999999999999998875443333444

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.89  E-value=0.011  Score=54.26  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++++|++|+||||++..++..+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46889999999999999999887765

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=96.88  E-value=0.0015  Score=59.44  Aligned_cols=52  Identities=23%  Similarity=0.303  Sum_probs=37.9

Q ss_pred             CcCcccccHHHHHHHHHHhc-------CC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            8 PKELVGMESRLEKLKFLMCT-------GS-------NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~-------~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ....||.+...+.|...+..       ..       -....++++||+|+|||++|+.++..+...
T Consensus        70 ~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~p  135 (412)
T PRK05342         70 DQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVP  135 (412)
T ss_pred             hhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            34679999999888665521       00       013568999999999999999999776443

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

Probab=96.88  E-value=0.0015  Score=50.12  Aligned_cols=28  Identities=25%  Similarity=0.279  Sum_probs=24.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++|.|+|+.|+|||||+..+++.+.++.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g   28 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRG   28 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcC
Confidence            4789999999999999999999986553

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.88  E-value=0.0038  Score=52.41  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.||.|.|||||++.+.-
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            37899999999999999999886

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.87  E-value=0.014  Score=47.22  Aligned_cols=48  Identities=19%  Similarity=0.071  Sum_probs=34.4

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +|...|..+=+-..++.|-|+-|+|||.|.+++++-.-.....+.+++
T Consensus        16 elDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvs   63 (235)
T COG2874          16 ELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVS   63 (235)
T ss_pred             HHHhhccCCCccCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEE
Confidence            344445433344688999999999999999999998665544455543

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.86  E-value=0.0046  Score=50.41  Aligned_cols=24  Identities=33%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++-.
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            478999999999999999998853

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.86  E-value=0.0088  Score=50.69  Aligned_cols=37  Identities=19%  Similarity=0.131  Sum_probs=28.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      ...+++|.|++|+|||+|+.+++...... .....|++
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s   49 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS   49 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence            45799999999999999999998876444 34445554

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

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.86  E-value=0.01  Score=50.58  Aligned_cols=107  Identities=19%  Similarity=0.195  Sum_probs=68.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ...+|+|+||.|+||||-.......+.++....+.-.     -++...+..-.+.++.+     -.-..+...+...++.
T Consensus       124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI-----EDPIE~vh~skkslI~Q-----REvG~dT~sF~~aLra  193 (353)
T COG2805         124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI-----EDPIEYVHESKKSLINQ-----REVGRDTLSFANALRA  193 (353)
T ss_pred             CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe-----cCchHhhhcchHhhhhH-----HHhcccHHHHHHHHHH
Confidence            4479999999999999888888888766655444432     11111111112222222     1112345667788899


Q ss_pred             hhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677          111 RLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+++.|=+|++-+..+.+.+..-+..-    .-+++|+.|-
T Consensus       194 ALReDPDVIlvGEmRD~ETi~~ALtAA----ETGHLV~~TL  230 (353)
T COG2805         194 ALREDPDVILVGEMRDLETIRLALTAA----ETGHLVFGTL  230 (353)
T ss_pred             HhhcCCCEEEEeccccHHHHHHHHHHH----hcCCEEEEec
Confidence            999999999999999888876655542    2346666654

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=96.85  E-value=0.013  Score=57.86  Aligned_cols=128  Identities=16%  Similarity=0.042  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD   95 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   95 (352)
                      ....+|.+.+..    .++++|.|++|+||||-+-+++.+........+-+...+.    .. ..++...+...+....+
T Consensus        53 ~~~~~i~~ai~~----~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRR----lA-ArsvA~RvAeel~~~~G  123 (845)
T COG1643          53 AVRDEILKAIEQ----NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRR----LA-ARSVAERVAEELGEKLG  123 (845)
T ss_pred             HHHHHHHHHHHh----CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchH----HH-HHHHHHHHHHHhCCCcC
Confidence            345666666663    3789999999999999998888765433333333332211    11 24555666666544322


Q ss_pred             CC-------------c-----cchhhhHHHHH-hhhCCceEEEEEeCCCChhh----hhhhhCC-CCCCCCCceEEEEeC
Q 045677           96 NS-------------I-----RNVYDGVNMIG-SRLRHKKVLLLIDDVADVEQ----LRGLFGK-RDWFGLGSMIIITTR  151 (352)
Q Consensus        96 ~~-------------~-----~~~~~~~~~~~-~~l~~~~~llvlDd~~~~~~----~~~l~~~-~~~~~~~~~iiitsr  151 (352)
                      ..             .     .....+...+. +..-.+--++|||++++..-    +-.++.. +.......+|||+|=
T Consensus       124 ~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSA  203 (845)
T COG1643         124 ETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSA  203 (845)
T ss_pred             ceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEEec
Confidence            11             0     11222223232 33334556999999975432    1111111 122233488999875


Q ss_pred             c
Q 045677          152 D  152 (352)
Q Consensus       152 ~  152 (352)
                      .
T Consensus       204 T  204 (845)
T COG1643         204 T  204 (845)
T ss_pred             c
Confidence            3

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.85  E-value=0.0055  Score=57.57  Aligned_cols=115  Identities=17%  Similarity=0.155  Sum_probs=60.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC---------------
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS---------------   97 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~---------------   97 (352)
                      ++|+|+|+.|+||||-+.++...-.  |....-+.+.  .+..... .++.+.+...+...-...               
T Consensus       372 ~vvvivgETGSGKTTQl~QyL~edG--Y~~~GmIGcT--QPRRvAA-iSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~T  446 (1042)
T KOG0924|consen  372 QVVVIVGETGSGKTTQLAQYLYEDG--YADNGMIGCT--QPRRVAA-ISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDT  446 (1042)
T ss_pred             cEEEEEecCCCCchhhhHHHHHhcc--cccCCeeeec--CchHHHH-HHHHHHHHHHhCCccccccceEEEeeecCCCce
Confidence            7899999999999998877765532  2222222110  1111222 566666666653322211               


Q ss_pred             ----ccchhhhHHHHHhhhCCceEEEEEeCCCChh----hhhhhhCCCCCCCCCceEEEEeCc
Q 045677           98 ----IRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----QLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        98 ----~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                          ..+.-.+.+.+.+..-.+--+||+|+.++..    -+--++..........++||||-.
T Consensus       447 ~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~larRrdlKliVtSAT  509 (1042)
T KOG0924|consen  447 KIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLARRRDLKLIVTSAT  509 (1042)
T ss_pred             eEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHhhccceEEEeecc
Confidence                0122223333444444567799999996432    111112111122457789998864

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.84  E-value=0.00092  Score=51.19  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +++|+|++|+|||||++.+.......
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            36899999999999999999775443

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.

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.83  E-value=0.007  Score=57.85  Aligned_cols=116  Identities=13%  Similarity=0.100  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD   95 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   95 (352)
                      ..++.+.+.+..   ...+|+|+|+.|+||||++..+...+...-...+-+.+.     ....    +..+ .+    ..
T Consensus       303 ~~~~~l~~~~~~---~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdp-----vE~~----~~~~-~q----~~  365 (564)
T TIGR02538       303 DQKALFLEAIHK---PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDP-----VEIN----LPGI-NQ----VN  365 (564)
T ss_pred             HHHHHHHHHHHh---cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCC-----ceec----CCCc-eE----EE
Confidence            344556655552   337899999999999999988877764332122222111     0000    0000 00    00


Q ss_pred             CCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677           96 NSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        96 ~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      ............++..+...|=+|++.++.+.+.....+....    -++.++||-.
T Consensus       366 v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd~eta~~a~~aa~----tGHlv~tTlH  418 (564)
T TIGR02538       366 VNPKIGLTFAAALRSFLRQDPDIIMVGEIRDLETAEIAIKAAQ----TGHLVLSTLH  418 (564)
T ss_pred             eccccCCCHHHHHHHHhccCCCEEEeCCCCCHHHHHHHHHHHH----cCCcEEEEec
Confidence            0111123456777888889999999999988877654444321    2355666643

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.83  E-value=0.0088  Score=59.08  Aligned_cols=27  Identities=19%  Similarity=0.281  Sum_probs=23.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +++.|.|++|+||||++..+...+...
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~~~~  395 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAWEAA  395 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHHHhC
Confidence            688899999999999999988776554

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.83  E-value=0.0036  Score=58.36  Aligned_cols=38  Identities=16%  Similarity=0.040  Sum_probs=27.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeec
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADV   69 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~   69 (352)
                      .+-.+|+|++|+|||+|+..+++.+... -...+++..+
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLI  454 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLV  454 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEE
Confidence            4667899999999999999999876443 3333344433

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=96.82  E-value=0.037  Score=46.78  Aligned_cols=56  Identities=18%  Similarity=0.122  Sum_probs=38.6

Q ss_pred             ceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-hHhhhcC-cccEEecCCC
Q 045677          115 KKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKLHR-VEEVYKLEAL  170 (352)
Q Consensus       115 ~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~~~-~~~~~~l~~l  170 (352)
                      ..=++|||+++  .......++..+.+.+.++.+|++|.+. .+.+... ....+.+.+.
T Consensus        88 ~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~  147 (261)
T PRK05818         88 GKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSK  147 (261)
T ss_pred             CCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCCh
Confidence            45688999997  4567889998888878888877777654 4444433 3355666665

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

Probab=96.82  E-value=0.0043  Score=51.95  Aligned_cols=92  Identities=16%  Similarity=0.216  Sum_probs=50.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccccc--C---CCcHHHHH--HHHHHHHhcccCCCcc----
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCD--K---EGSVISLQ--KQLLSDLLMLADNSIR----   99 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~--~---~~~~~~l~--~~~~~~~~~~~~~~~~----   99 (352)
                      ++.+++++|++|+||||+.+.+...+..+... .++.++...-.  +   .-.+++.+  +.+..+...+++..+.    
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p-pYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~TsLN   96 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP-PYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTSLN   96 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC-CeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhhHH
Confidence            45678899999999999999999887665432 33334432211  1   11112222  2455666555555542    


Q ss_pred             ----chhhhHHHHHhhhCCceEEEEEeCC
Q 045677          100 ----NVYDGVNMIGSRLRHKKVLLLIDDV  124 (352)
Q Consensus       100 ----~~~~~~~~~~~~l~~~~~llvlDd~  124 (352)
                          ...+.+..+.+......+ +++|--
T Consensus        97 LF~tk~dqv~~~iek~~~~~~~-~liDTP  124 (366)
T KOG1532|consen   97 LFATKFDQVIELIEKRAEEFDY-VLIDTP  124 (366)
T ss_pred             HHHHHHHHHHHHHHHhhcccCE-EEEcCC
Confidence                334444555444444334 445553

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=96.81  E-value=0.0027  Score=53.68  Aligned_cols=58  Identities=24%  Similarity=0.282  Sum_probs=44.5

Q ss_pred             CCCCCcCcccccHHHHH---HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677            4 ELEIPKELVGMESRLEK---LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~---l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      +...+..|||.....+.   +.+++..+.=..+.+++.||+|+|||+||..+.+.+....+
T Consensus        33 ~~~~~~g~vGQ~~AReAagiivdlik~KkmaGravLlaGppgtGKTAlAlaisqELG~kvP   93 (456)
T KOG1942|consen   33 AVEVAAGFVGQENAREAAGIIVDLIKSKKMAGRAVLLAGPPGTGKTALALAISQELGPKVP   93 (456)
T ss_pred             eeecccccccchhhhhhhhHHHHHHHhhhccCcEEEEecCCCCchhHHHHHHHHHhCCCCC
Confidence            34556789999877653   45555554444589999999999999999999999877643

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.81  E-value=0.003  Score=53.12  Aligned_cols=48  Identities=19%  Similarity=0.089  Sum_probs=32.7

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      .|-+.+..+=....++.|.|++|+|||+|+.+++..........+|+.
T Consensus         8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             hHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            344444433334688999999999999999998765434444555654

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.

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

Probab=96.81  E-value=0.00097  Score=51.99  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +++|+|++|+||||+++.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            37899999999999999998764

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.80  E-value=0.013  Score=53.45  Aligned_cols=29  Identities=24%  Similarity=0.252  Sum_probs=25.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.+++++|++|+||||++..++..++.+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            35789999999999999999998877654

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.

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

Probab=96.80  E-value=0.015  Score=47.45  Aligned_cols=22  Identities=32%  Similarity=0.259  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |+|.|++|+||||++..++...
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998774

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

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.80  E-value=0.0025  Score=50.51  Aligned_cols=29  Identities=24%  Similarity=0.313  Sum_probs=25.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+++.|+|++|+|||||+..+...+..+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45789999999999999999999887654

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=96.80  E-value=0.0031  Score=51.70  Aligned_cols=29  Identities=34%  Similarity=0.390  Sum_probs=22.4

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +..+.++++.|++|+|||+++..+...+.
T Consensus        12 ~~~P~~~i~aG~~GsGKSt~~~~~~~~~~   40 (199)
T PF06414_consen   12 QEKPTLIIIAGQPGSGKSTLARQLLEEFG   40 (199)
T ss_dssp             -SS-EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred             ccCCEEEEEeCCCCCCHHHHHHHhhhhcc
Confidence            35678888999999999999999988764

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.041  Score=52.85  Aligned_cols=49  Identities=22%  Similarity=0.314  Sum_probs=36.7

Q ss_pred             ccccHHHHHHHHHHhcCC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           12 VGMESRLEKLKFLMCTGS-------NDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+++..+..+.+.+....       .....++++|++|+|||++++.+++.+..|+
T Consensus       404 ~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~  459 (953)
T KOG0736|consen  404 PGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHL  459 (953)
T ss_pred             ccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCce
Confidence            355555666666666421       2357889999999999999999999987773

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.80  E-value=0.0037  Score=55.14  Aligned_cols=41  Identities=22%  Similarity=0.314  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+.+.+....+...+|.|.|++|+|||||+..+...+...
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            34444444334566889999999999999999998887654

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.79  E-value=0.011  Score=48.53  Aligned_cols=27  Identities=19%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++.|.|+.|+|||||++.+.-...
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            347899999999999999999876543

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.79  E-value=0.0036  Score=60.95  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...|.|+|.+|+|||||++.+..
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46799999999999999998765

>TIGR01069 mutS2 MutS2 family protein

Probab=96.78  E-value=0.0022  Score=63.24  Aligned_cols=24  Identities=29%  Similarity=0.227  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+.+.|+||.|.|||||.+.+.-.
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHH
Confidence            478999999999999999988754

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.

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=96.78  E-value=0.015  Score=49.75  Aligned_cols=35  Identities=20%  Similarity=0.230  Sum_probs=25.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH-hcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL-MSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~-~~~~~~~~~~~   66 (352)
                      +-+.+|+||.|+|||.|.+.+... +-+.-...+|+
T Consensus        87 P~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfF  122 (369)
T PF02456_consen   87 PFIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFF  122 (369)
T ss_pred             ceEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEE
Confidence            455678999999999999988865 44444444444

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

>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=96.78  E-value=0.0017  Score=52.26  Aligned_cols=26  Identities=35%  Similarity=0.531  Sum_probs=22.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +|.|.|.+|+|||||+..+...+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~   26 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVN   26 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            47899999999999999999887543

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

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

Probab=96.78  E-value=0.0013  Score=52.97  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999887754

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.77  E-value=0.0083  Score=52.82  Aligned_cols=92  Identities=18%  Similarity=0.164  Sum_probs=50.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      ...++|.|+.|+|||||++.+...+..+. ..+.+.+..........       .. .+...............+.+...
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~~~-------~~-~l~~~~~~~~~~~~~~~~~l~~~  214 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPHPN-------YV-HLFYSKGGQGLAKVTPKDLLQSC  214 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCCCC-------EE-EEEecCCCCCcCccCHHHHHHHH
Confidence            36899999999999999999887664432 22333222111110000       00 00000000111122334556667


Q ss_pred             hCCceEEEEEeCCCChhhhhh
Q 045677          112 LRHKKVLLLIDDVADVEQLRG  132 (352)
Q Consensus       112 l~~~~~llvlDd~~~~~~~~~  132 (352)
                      +...+-.+++|++.+.+.+..
T Consensus       215 Lr~~pd~ii~gE~r~~e~~~~  235 (308)
T TIGR02788       215 LRMRPDRIILGELRGDEAFDF  235 (308)
T ss_pred             hcCCCCeEEEeccCCHHHHHH
Confidence            778888999999987665543

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.

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]

Probab=96.77  E-value=0.0076  Score=56.54  Aligned_cols=124  Identities=15%  Similarity=0.156  Sum_probs=66.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCC-
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNS-   97 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-   97 (352)
                      ++|...+.    +.+++.|.|+.|+||||=+-+++.+..-.-...+-+.    .+..... .++...++......-..+ 
T Consensus        57 ~~il~~ve----~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~T----QPRRVAa-vslA~RVAeE~~~~lG~~V  127 (674)
T KOG0922|consen   57 DQILYAVE----DNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACT----QPRRVAA-VSLAKRVAEEMGCQLGEEV  127 (674)
T ss_pred             HHHHHHHH----HCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEee----cCchHHH-HHHHHHHHHHhCCCcCcee
Confidence            45555555    2378999999999999999888876432222223332    1222222 566666666554322211 


Q ss_pred             ------------------ccchhhhHHHHHhhhCCceEEEEEeCCCChhh----hhhhhCCCCCCCCCceEEEEeC
Q 045677           98 ------------------IRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ----LRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        98 ------------------~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~----~~~l~~~~~~~~~~~~iiitsr  151 (352)
                                        ..+.-.+-+.+.+-+-.+--+||||++++..-    +--++..+.......++||+|-
T Consensus       128 GY~IRFed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R~~LklIimSA  203 (674)
T KOG0922|consen  128 GYTIRFEDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKILKKRPDLKLIIMSA  203 (674)
T ss_pred             eeEEEecccCCCceeEEEecchHHHHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHHHhcCCCceEEEEee
Confidence                              01122222333333345667999999976432    2222222322345678888775

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.77  E-value=0.0077  Score=50.08  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      |+|+|++|+||||++..++..+.
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999987653

>TIGR00959 ffh signal recognition particle protein

Probab=96.77  E-value=0.0085  Score=54.85  Aligned_cols=26  Identities=27%  Similarity=0.276  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.+++++|++|+||||++..++..+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            57899999999999999999988864

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.76  E-value=0.0013  Score=53.11  Aligned_cols=26  Identities=19%  Similarity=0.255  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.++++|+||+|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35889999999999999999998764

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.75  E-value=0.0053  Score=50.39  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...++.|.|+.|+|||||++.++-.
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3478999999999999999998765

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.75  E-value=0.0079  Score=50.32  Aligned_cols=23  Identities=30%  Similarity=0.524  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|.|++|+||||+++.+++...
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            88999999999999999987753

>PRK13764 ATPase; Provisional

Probab=96.75  E-value=0.0083  Score=57.06  Aligned_cols=85  Identities=14%  Similarity=0.125  Sum_probs=47.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      ..++|+|++|+||||+++.++..+..+......+.+........         ...++    .....+.....   ...+
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~---------~i~q~----~~~~~~~~~~~---~~lL  321 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPP---------EITQY----SKLEGSMEETA---DILL  321 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCC---------cceEE----eeccccHHHHH---HHHH
Confidence            45899999999999999999988764432222333222211100         00000    00001111112   2235


Q ss_pred             CCceEEEEEeCCCChhhhhhh
Q 045677          113 RHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~~l  133 (352)
                      ..+|=.+++|++.+.++++.+
T Consensus       322 R~rPD~IivGEiRd~Et~~~~  342 (602)
T PRK13764        322 LVRPDYTIYDEMRKTEDFKIF  342 (602)
T ss_pred             hhCCCEEEECCCCCHHHHHHH
Confidence            667889999999887777654

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=96.75  E-value=0.0022  Score=64.17  Aligned_cols=141  Identities=18%  Similarity=0.145  Sum_probs=74.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC----cceeEeeeccccccCCCcHH--HHHHHHHHHHhcccCCCccchhhhHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF----DGSSFLADVRERCDKEGSVI--SLQKQLLSDLLMLADNSIRNVYDGVN  106 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~~~~~~~~  106 (352)
                      .-++|+|.+|+||||++..++.....+.    ...++.. +...........  .+...+...+..     .........
T Consensus       223 ~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~-l~~~~~~~~~~~q~~~~~~l~~~~~~-----~~~~~~~~~  296 (824)
T COG5635         223 AKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLL-LNAFALARKFEKQLSLIDYLAEELFS-----QGIAKQLIE  296 (824)
T ss_pred             hheeeecCCCCCceehHHHHHHHhccCcCCcccCceeee-chhHHHhhhhHhhccHHHHHHHHHhc-----cCCcchhhH
Confidence            3688999999999999999887643332    1222222 110000000000  111111111111     111222233


Q ss_pred             HHHhhhCCceEEEEEeCCCChhh------hhhhhCCCCCCCCCceEEEEeCchhHhhhcCcccEEecCCCCHhHHHHHHH
Q 045677          107 MIGSRLRHKKVLLLIDDVADVEQ------LRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVEEVYKLEALNFDEAFRLFC  180 (352)
Q Consensus       107 ~~~~~l~~~~~llvlDd~~~~~~------~~~l~~~~~~~~~~~~iiitsr~~~~~~~~~~~~~~~l~~l~~~e~~~ll~  180 (352)
                      ...+.+...++++++|.++....      +..+...++ .-+..++|+|+|..............++..+..+.....+.
T Consensus       297 ~~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~-~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~  375 (824)
T COG5635         297 AHQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQ-EYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFIL  375 (824)
T ss_pred             HHHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhh-hccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHH
Confidence            33567788999999999864321      222211111 13477899999977665554445566677777665554443

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.74  E-value=0.0014  Score=49.54  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +-++|+|.||+|||||+.+++....
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~   32 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTG   32 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhC
Confidence            5588999999999999999997654

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.0015  Score=50.25  Aligned_cols=26  Identities=38%  Similarity=0.521  Sum_probs=22.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.|.|++|+||||+++.++..+.-.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~   27 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK   27 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc
Confidence            47899999999999999999886644

>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=96.73  E-value=0.0016  Score=46.92  Aligned_cols=22  Identities=36%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      ...+.|.|++|+|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4789999999999999999976

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

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.72  E-value=0.006  Score=46.34  Aligned_cols=25  Identities=20%  Similarity=0.042  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+.|.|++|+|||+.+..++.....
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            3679999999999999888877543

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.72  E-value=0.0068  Score=59.19  Aligned_cols=96  Identities=18%  Similarity=0.108  Sum_probs=54.9

Q ss_pred             HHHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhccc---
Q 045677           19 EKLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLA---   94 (352)
Q Consensus        19 ~~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---   94 (352)
                      ..|-..|. .+=....++.|+|++|+|||+|+.+++..........+|+..-....      .    ..+..++...   
T Consensus        46 ~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~------~----~~A~~lGvDl~~l  115 (790)
T PRK09519         46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALD------P----DYAKKLGVDTDSL  115 (790)
T ss_pred             HHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchh------H----HHHHHcCCChhHe
Confidence            34445554 33345688999999999999999998776555555566664211111      1    1222222111   


Q ss_pred             -CCCccchhhhHHHHHhhhC-CceEEEEEeCC
Q 045677           95 -DNSIRNVYDGVNMIGSRLR-HKKVLLLIDDV  124 (352)
Q Consensus        95 -~~~~~~~~~~~~~~~~~l~-~~~~llvlDd~  124 (352)
                       -......+.....+..... +..-+||+|.+
T Consensus       116 lv~~~~~~E~~l~~i~~lv~~~~~~LVVIDSI  147 (790)
T PRK09519        116 LVSQPDTGEQALEIADMLIRSGALDIVVIDSV  147 (790)
T ss_pred             EEecCCCHHHHHHHHHHHhhcCCCeEEEEcch
Confidence             1112333445555555443 46779999998

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.72  E-value=0.0021  Score=47.78  Aligned_cols=27  Identities=30%  Similarity=0.236  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+|++.|+-|+|||||++.+++.+.
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~lg   40 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARALG   40 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            348999999999999999999998763

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.012  Score=51.61  Aligned_cols=31  Identities=29%  Similarity=0.388  Sum_probs=27.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      .++-|+++||+|+|||-||+.++.+....|-
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Akeaga~fI  156 (386)
T KOG0737|consen  126 PPKGILLYGPPGTGKTMLAKAIAKEAGANFI  156 (386)
T ss_pred             CCccceecCCCCchHHHHHHHHHHHcCCCcc
Confidence            4577999999999999999999998877764

>PRK05439 pantothenate kinase; Provisional

Probab=96.71  E-value=0.0026  Score=55.44  Aligned_cols=30  Identities=37%  Similarity=0.429  Sum_probs=25.1

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+.+.+|.|.|++|+||||+|..+...+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345678999999999999999998887654

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

Probab=96.71  E-value=0.0014  Score=54.31  Aligned_cols=23  Identities=35%  Similarity=0.517  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-+|+|.|++|+|||||.+.++-
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            47899999999999999999874

>COG1485 Predicted ATPase [General function prediction only]

Probab=96.71  E-value=0.0069  Score=52.78  Aligned_cols=101  Identities=23%  Similarity=0.340  Sum_probs=56.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ..+-+.+||+-|.|||-|+..+++.+.-.-...+-+             ......+-..+..... ..    +.+..+..
T Consensus        64 ~~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HF-------------h~FM~~vH~~l~~l~g-~~----dpl~~iA~  125 (367)
T COG1485          64 PVRGLYLWGGVGRGKTMLMDLFYESLPGERKRRLHF-------------HRFMARVHQRLHTLQG-QT----DPLPPIAD  125 (367)
T ss_pred             CCceEEEECCCCccHHHHHHHHHhhCCccccccccH-------------HHHHHHHHHHHHHHcC-CC----CccHHHHH
Confidence            456788999999999999999998864332111111             2222222222222121 11    33344555


Q ss_pred             hhCCceEEEEEeCCC--Chhh---hhhhhCCCCCCCCCceEEEEeC
Q 045677          111 RLRHKKVLLLIDDVA--DVEQ---LRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       111 ~l~~~~~llvlDd~~--~~~~---~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+...-.+|+||++.  ++.+   +..++..+-  ..|+.++.||.
T Consensus       126 ~~~~~~~vLCfDEF~VtDI~DAMiL~rL~~~Lf--~~GV~lvaTSN  169 (367)
T COG1485         126 ELAAETRVLCFDEFEVTDIADAMILGRLLEALF--ARGVVLVATSN  169 (367)
T ss_pred             HHHhcCCEEEeeeeeecChHHHHHHHHHHHHHH--HCCcEEEEeCC
Confidence            556667799999983  4443   333333332  34666666664

>PRK00625 shikimate kinase; Provisional

Probab=96.70  E-value=0.0016  Score=51.86  Aligned_cols=25  Identities=24%  Similarity=0.446  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .|+|+|++|+||||+++.+++.+.-
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~   26 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSL   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3789999999999999999988653

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.70  E-value=0.0086  Score=55.09  Aligned_cols=29  Identities=28%  Similarity=0.384  Sum_probs=24.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+-+.|.|.+|+|||+|+.+++.....+
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~  170 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQ  170 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhh
Confidence            34678899999999999999999887643

>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=96.69  E-value=0.0012  Score=54.28  Aligned_cols=22  Identities=32%  Similarity=0.160  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++|+|+.|.|||||++.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            7899999999999999999884

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

>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=96.69  E-value=0.0032  Score=49.45  Aligned_cols=116  Identities=20%  Similarity=0.223  Sum_probs=56.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      ..++.|.|+.|.|||||++.+...... ....+++... ..... .. .    .......-...  ....+...-.+...
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~-~~G~i~~~~~-~~~~~-~~-~----~~~~~i~~~~q--lS~G~~~r~~l~~~   94 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKP-TSGEILIDGK-DIAKL-PL-E----ELRRRIGYVPQ--LSGGQRQRVALARA   94 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CccEEEECCE-EcccC-CH-H----HHHhceEEEee--CCHHHHHHHHHHHH
Confidence            368899999999999999998865432 2333443321 11100 00 0    11111110000  11112222234444


Q ss_pred             hCCceEEEEEeCCC---ChhhhhhhhCCCCCC-CCCceEEEEeCchhHhh
Q 045677          112 LRHKKVLLLIDDVA---DVEQLRGLFGKRDWF-GLGSMIIITTRDEHLLK  157 (352)
Q Consensus       112 l~~~~~llvlDd~~---~~~~~~~l~~~~~~~-~~~~~iiitsr~~~~~~  157 (352)
                      +...+-++++|+..   +......+...+... ..+..+|++|.+.....
T Consensus        95 l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  144 (157)
T cd00267          95 LLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAE  144 (157)
T ss_pred             HhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            55567899999983   333333333332211 12456777776554433

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.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.69  E-value=0.002  Score=41.24  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.+|+|+.|+|||||.-.+..-+
T Consensus        24 ~~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999998776543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.68  E-value=0.0063  Score=53.59  Aligned_cols=36  Identities=25%  Similarity=0.222  Sum_probs=26.7

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .|-..|..+=....++.|+|++|+|||+|+.+++..
T Consensus        84 ~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~  119 (316)
T TIGR02239        84 ELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVT  119 (316)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            344444433344688999999999999999988764

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).

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.68  E-value=0.0047  Score=53.11  Aligned_cols=36  Identities=17%  Similarity=0.138  Sum_probs=29.1

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeE
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSF   65 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~   65 (352)
                      .+..++.|.|.+|+|||||+..+...+.......+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI  137 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI  137 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence            456889999999999999999999988666543333

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.67  E-value=0.0094  Score=50.46  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.+|+|++|+|||+|+.+++..+
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~v   25 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAM   25 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHH
Confidence            56799999999999999998764

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.

>PRK06217 hypothetical protein; Validated

Probab=96.67  E-value=0.0016  Score=52.67  Aligned_cols=24  Identities=33%  Similarity=0.457  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|+|.|.+|+||||+++.+...+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            488999999999999999998864

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.67  E-value=0.0021  Score=54.02  Aligned_cols=38  Identities=18%  Similarity=0.056  Sum_probs=27.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ....++.|.|++|+|||+|+.+++....++.....|+.
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            34568999999999999999888776543334444443

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.66  E-value=0.0095  Score=53.59  Aligned_cols=35  Identities=34%  Similarity=0.304  Sum_probs=28.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh--cCCCcceeEee
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM--SHEFDGSSFLA   67 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~--~~~~~~~~~~~   67 (352)
                      ++++|.|.||+|||.||..++..+  ........+.+
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~   38 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLC   38 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEE
Confidence            578999999999999999999998  55555555554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

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

Probab=96.66  E-value=0.0015  Score=50.92  Aligned_cols=20  Identities=40%  Similarity=0.635  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~   53 (352)
                      .+.|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            47899999999999999888

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.66  E-value=0.0045  Score=54.25  Aligned_cols=42  Identities=21%  Similarity=0.253  Sum_probs=31.2

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+.+.+....+...++.|+|++|+|||||+..+...+...
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            334444444344567899999999999999999998876554

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

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=96.66  E-value=0.032  Score=55.77  Aligned_cols=161  Identities=16%  Similarity=0.160  Sum_probs=84.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIG  109 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (352)
                      .+++-|+.+|++|+|||..|++++.........+.|+..-+.             ..+..+.+      ....++...+.
T Consensus       297 tpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkga-------------D~lskwvg------EaERqlrllFe  357 (1080)
T KOG0732|consen  297 TPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGA-------------DCLSKWVG------EAERQLRLLFE  357 (1080)
T ss_pred             CCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCc-------------hhhccccC------cHHHHHHHHHH
Confidence            346779999999999999999999877666555555531111             11111111      11122223334


Q ss_pred             hhhCCceEEEEEeCCCC-------hh-----h-hhhhhCCCCCCCCCceEEE---EeCchhHhhh----cCcccEEecCC
Q 045677          110 SRLRHKKVLLLIDDVAD-------VE-----Q-LRGLFGKRDWFGLGSMIII---TTRDEHLLKL----HRVEEVYKLEA  169 (352)
Q Consensus       110 ~~l~~~~~llvlDd~~~-------~~-----~-~~~l~~~~~~~~~~~~iii---tsr~~~~~~~----~~~~~~~~l~~  169 (352)
                      ++-+.++.++.+|.++.       ..     + +-.++..+.-....+.+++   |.|.+.+-+.    .++...+.. +
T Consensus       358 eA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRRPgrfdref~f-~  436 (1080)
T KOG0732|consen  358 EAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRRPGRFDREFYF-P  436 (1080)
T ss_pred             HHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccccchhhcCCcccceeEee-e
Confidence            44567889999999962       11     1 2223333332333444444   3343332222    233333433 3


Q ss_pred             CCHhHH-HHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          170 LNFDEA-FRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       170 l~~~e~-~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      |+.-++ ..++.-+. ..-. .+........+++.|.|..-+--
T Consensus       437 lp~~~ar~~Il~Iht-rkw~-~~i~~~l~~~la~~t~gy~gaDl  478 (1080)
T KOG0732|consen  437 LPDVDARAKILDIHT-RKWE-PPISRELLLWLAEETSGYGGADL  478 (1080)
T ss_pred             CCchHHHHHHHHHhc-cCCC-CCCCHHHHHHHHHhccccchHHH
Confidence            333333 33333222 2222 33456888999999999987763

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

Probab=96.66  E-value=0.0073  Score=50.86  Aligned_cols=124  Identities=18%  Similarity=0.232  Sum_probs=63.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccccc-CCCcHHHHHHHHHHHHhccc------CCCccchhhh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCD-KEGSVISLQKQLLSDLLMLA------DNSIRNVYDG  104 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~------~~~~~~~~~~  104 (352)
                      ...+.|+|++|+||||+++.+..-..-. ...+++... +... ..........+++...+...      +-+....+.+
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~pt-~G~i~f~g~-~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQ  116 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEPT-SGEILFEGK-DITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQ  116 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCCC-CceEEEcCc-chhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhh
Confidence            4688999999999999999988654433 233444311 1111 01111223334444332111      1112233333


Q ss_pred             HHHHHhhhCCceEEEEEeCCCCh------hhhhhhhCCCCCCCCCceEEEEeCchhHhhh
Q 045677          105 VNMIGSRLRHKKVLLLIDDVADV------EQLRGLFGKRDWFGLGSMIIITTRDEHLLKL  158 (352)
Q Consensus       105 ~~~~~~~l~~~~~llvlDd~~~~------~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~  158 (352)
                      --.+.+.+.-++-++|.|+.-+.      .++-.++..+.. ..+...++.|-+-.+...
T Consensus       117 Ri~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~lt~lFIsHDL~vv~~  175 (268)
T COG4608         117 RIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELGLTYLFISHDLSVVRY  175 (268)
T ss_pred             hHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhCCeEEEEEEEHHhhhh
Confidence            34455666778899999997321      223333333221 234556666666555444

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.66  E-value=0.007  Score=57.73  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....+.|+|++|+|||||++.+...
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999988753

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.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.65  E-value=0.0022  Score=52.67  Aligned_cols=22  Identities=27%  Similarity=0.214  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      .+++.|+|+.|.|||||++.+.
T Consensus        28 ~~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          28 KRVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             ceEEEEECCCCCChHHHHHHHH
Confidence            3789999999999999999987

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

>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=96.65  E-value=0.0018  Score=48.10  Aligned_cols=21  Identities=38%  Similarity=0.512  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||++.++..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            689999999999999999865

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=96.65  E-value=0.0033  Score=53.56  Aligned_cols=30  Identities=27%  Similarity=0.401  Sum_probs=25.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ....+|.|.|.+|+||||+++.+.+.+...
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~~~   32 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFRRE   32 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            345889999999999999999999877543

>PRK14527 adenylate kinase; Provisional

Probab=96.65  E-value=0.0019  Score=52.60  Aligned_cols=27  Identities=22%  Similarity=0.239  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+++|.|++|+||||+++.++....
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999987653

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.65  E-value=0.019  Score=48.26  Aligned_cols=25  Identities=36%  Similarity=0.485  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++-..
T Consensus        29 G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          29 GETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCc
Confidence            4679999999999999999988643

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.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=96.63  E-value=0.053  Score=50.72  Aligned_cols=48  Identities=15%  Similarity=0.077  Sum_probs=36.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|....+..+.+.+..-......++|.|++|+||+++|..+.....
T Consensus       144 ~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~  191 (457)
T PRK11361        144 HILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSR  191 (457)
T ss_pred             ceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCC
Confidence            478888778777776665334446788999999999999999877543

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.63  E-value=0.01  Score=54.49  Aligned_cols=31  Identities=29%  Similarity=0.522  Sum_probs=25.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      ..+-+.|.|.+|+|||+|+..++.....+..
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~  173 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEHG  173 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcCC
Confidence            3467889999999999999999887665533

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.63  E-value=0.0091  Score=57.30  Aligned_cols=27  Identities=30%  Similarity=0.228  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .++.+|+|.+|+||||++..+...+.+
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~  193 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQ  193 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            378999999999999999998877533

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.014  Score=52.71  Aligned_cols=30  Identities=30%  Similarity=0.412  Sum_probs=24.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +..+-+++.||+|+|||-|++.++.+....
T Consensus       184 ~p~rglLLfGPpgtGKtmL~~aiAsE~~at  213 (428)
T KOG0740|consen  184 EPVRGLLLFGPPGTGKTMLAKAIATESGAT  213 (428)
T ss_pred             cccchhheecCCCCchHHHHHHHHhhhcce
Confidence            445678899999999999999999876544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.62  E-value=0.0065  Score=53.50  Aligned_cols=29  Identities=24%  Similarity=0.247  Sum_probs=25.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46789999999999999999999887654

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.62  E-value=0.0079  Score=52.87  Aligned_cols=87  Identities=26%  Similarity=0.253  Sum_probs=49.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC--cceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF--DGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ..++|.|+.|+||||+++.+...+....  ...+-+.+..........          . ...   ...........+..
T Consensus       145 ~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n----------~-v~l---~~~~~~~~~~lv~~  210 (323)
T PRK13833        145 LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAEN----------A-VAL---HTSDTVDMARLLKS  210 (323)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCC----------E-EEe---ccCCCcCHHHHHHH
Confidence            4578999999999999999988764221  122222211111000000          0 000   00112234566677


Q ss_pred             hhCCceEEEEEeCCCChhhhhhh
Q 045677          111 RLRHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~~~~l  133 (352)
                      .++.++=.+++.++.+.+.+..+
T Consensus       211 aLR~~PD~IivGEiRg~ea~~~l  233 (323)
T PRK13833        211 TMRLRPDRIIVGEVRDGAALTLL  233 (323)
T ss_pred             HhCCCCCEEEEeecCCHHHHHHH
Confidence            78888889999999777766543

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=96.61  E-value=0.0073  Score=57.72  Aligned_cols=26  Identities=27%  Similarity=0.100  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++|+|.+|+||||++..++..+.
T Consensus       160 ~~~~vitGgpGTGKTt~v~~ll~~l~  185 (586)
T TIGR01447       160 SNFSLITGGPGTGKTTTVARLLLALV  185 (586)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            37899999999999999998887654

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PRK10646 ADP-binding protein; Provisional

Probab=96.61  E-value=0.0041  Score=48.06  Aligned_cols=44  Identities=23%  Similarity=0.258  Sum_probs=33.6

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      -..+.+++.+.+...-....+|++.|.=|+|||||++.+++.+.
T Consensus        10 s~~~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~Lg   53 (153)
T PRK10646         10 DEQATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQALG   53 (153)
T ss_pred             CHHHHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            34566667666664333446899999999999999999998864

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.60  E-value=0.011  Score=54.10  Aligned_cols=37  Identities=32%  Similarity=0.540  Sum_probs=27.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..+-+.|.|.+|+|||+|+..++.....+....+.+.
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~a  178 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFA  178 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEE
Confidence            3467889999999999999999887655433333333

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.

>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=96.59  E-value=0.002  Score=49.90  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +++|.|++|+||||++..++..+.
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998764

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.59  E-value=0.0044  Score=58.91  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+|.++||+|.||||+|..+.+
T Consensus       493 pGe~vALVGPSGsGKSTiasLL~r  516 (716)
T KOG0058|consen  493 PGEVVALVGPSGSGKSTIASLLLR  516 (716)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999987765

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.58  E-value=0.0037  Score=56.77  Aligned_cols=51  Identities=22%  Similarity=0.285  Sum_probs=37.4

Q ss_pred             CcCcccccHHHHHHHHHHhc----------CCC------CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            8 PKELVGMESRLEKLKFLMCT----------GSN------DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----------~~~------~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ....||.+...+.+...+..          ...      ....++++||+|+|||++|+.++..+..
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~  142 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNV  142 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCC
Confidence            34569999999888765521          010      1246899999999999999999977643

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK14529 adenylate kinase; Provisional

Probab=96.58  E-value=0.017  Score=47.99  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++|.|++|+||||++..++..+.-
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~   26 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDL   26 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Confidence            678999999999999999987653

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.58  E-value=0.0017  Score=52.28  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ++++|.|++|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999998754

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.57  E-value=0.015  Score=46.20  Aligned_cols=24  Identities=21%  Similarity=0.127  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|.|++|+|||++|..++....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~   26 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG   26 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC
Confidence            589999999999999999987753

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.57  E-value=0.0016  Score=51.50  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|.|++|+||||+++.+...+.
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.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.57  E-value=0.03  Score=46.22  Aligned_cols=24  Identities=38%  Similarity=0.583  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++-.
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999988754

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.56  E-value=0.0021  Score=53.02  Aligned_cols=26  Identities=27%  Similarity=0.307  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+++|+|++|+|||||+..++....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            47899999999999999999998653

>PRK13947 shikimate kinase; Provisional

Probab=96.56  E-value=0.0022  Score=51.15  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .|+|+|++|+||||+++.++..+.-.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~   28 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFG   28 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            37899999999999999999887543

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.55  E-value=0.0021  Score=53.88  Aligned_cols=47  Identities=26%  Similarity=0.149  Sum_probs=31.0

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      |-+.|..+=....+++|.|++|+|||+|+.+++...... ...++|+.
T Consensus         8 LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    8 LDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             HHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             HHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            334443322345789999999999999999988765444 44555554

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>COG1672 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.54  E-value=0.015  Score=52.55  Aligned_cols=56  Identities=21%  Similarity=0.210  Sum_probs=45.2

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..|++|+.|++.|...+.  .+...+++|+|+--+|||+|+..+.......+......
T Consensus         2 ~~f~dRE~El~~L~~~~~--~~~~~~~~i~G~rrvGKTsLl~~~~~~~~~~~~~~~~~   57 (359)
T COG1672           2 MKFFDREKELEELLKIIE--SEPPSIVFIYGRRRVGKTSLLKEFIKEKLGIYILVDFY   57 (359)
T ss_pred             cchhhHHHHHHHHHHHHh--cCCCeEEEEEcccccCHHHHHHHHHhcCCCcceEEEee
Confidence            469999999999999998  33446799999999999999999998766654444333

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.53  E-value=0.01  Score=50.53  Aligned_cols=42  Identities=17%  Similarity=0.236  Sum_probs=29.0

Q ss_pred             HHHHHHHHhcCCCC-eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           18 LEKLKFLMCTGSND-VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        18 l~~l~~~l~~~~~~-~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.+...+.+..+. +-++.++|.+|+||+..++.+++.+...
T Consensus        95 v~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~  137 (344)
T KOG2170|consen   95 VNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRG  137 (344)
T ss_pred             HHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhc
Confidence            34444444444444 4456699999999999999999875443

>smart00072 GuKc Guanylate kinase homologues

Probab=96.53  E-value=0.0024  Score=51.67  Aligned_cols=25  Identities=32%  Similarity=0.422  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++++|+||+|+||+|++..+.....
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcCC
Confidence            6899999999999999999987754

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.53  E-value=0.036  Score=47.86  Aligned_cols=26  Identities=31%  Similarity=0.540  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++.|+|+.|.|||||++.+..-..
T Consensus        30 Ge~~~IvG~nGsGKSTLl~~L~gl~~   55 (275)
T cd03289          30 GQRVGLLGRTGSGKSTLLSAFLRLLN   55 (275)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhcC
Confidence            46899999999999999999886653

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.017  Score=54.38  Aligned_cols=151  Identities=16%  Similarity=0.138  Sum_probs=80.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      .++-++++||+|+|||-+++.++++...    .+|..+.              .+++..+.+..      ...+-..+.+
T Consensus       217 ~prg~Ll~gppg~Gkt~l~~aVa~e~~a----~~~~i~~--------------peli~k~~gEt------e~~LR~~f~~  272 (693)
T KOG0730|consen  217 PPRGLLLYGPPGTGKTFLVRAVANEYGA----FLFLING--------------PELISKFPGET------ESNLRKAFAE  272 (693)
T ss_pred             CCCCccccCCCCCChHHHHHHHHHHhCc----eeEeccc--------------HHHHHhcccch------HHHHHHHHHH
Confidence            4677889999999999999999977552    2333211              12222222211      1233444555


Q ss_pred             hhCCc-eEEEEEeCCCChh---------h---hhhhhCCCCCCC-CCceEEE-EeCch-hHhhh---cCcccEEecCCCC
Q 045677          111 RLRHK-KVLLLIDDVADVE---------Q---LRGLFGKRDWFG-LGSMIII-TTRDE-HLLKL---HRVEEVYKLEALN  171 (352)
Q Consensus       111 ~l~~~-~~llvlDd~~~~~---------~---~~~l~~~~~~~~-~~~~iii-tsr~~-~~~~~---~~~~~~~~l~~l~  171 (352)
                      ....+ +.++.+|+++...         +   ...++..+.... .+..|++ +|++. .+.+.   .++...+.+.--+
T Consensus       273 a~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~alRRgRfd~ev~IgiP~  352 (693)
T KOG0730|consen  273 ALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDPALRRGRFDREVEIGIPG  352 (693)
T ss_pred             HhccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCccccChhhhcCCCcceeeecCCC
Confidence            56666 8899999985322         1   222333332222 2333444 44432 22222   2455666776666


Q ss_pred             HhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          172 FDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       172 ~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                      ..+-.++++.....-...   .......++..+.|+-
T Consensus       353 ~~~RldIl~~l~k~~~~~---~~~~l~~iA~~thGyv  386 (693)
T KOG0730|consen  353 SDGRLDILRVLTKKMNLL---SDVDLEDIAVSTHGYV  386 (693)
T ss_pred             chhHHHHHHHHHHhcCCc---chhhHHHHHHHccchh
Confidence            666666665554222222   2244666777777765

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.52  E-value=0.0078  Score=57.04  Aligned_cols=103  Identities=19%  Similarity=0.177  Sum_probs=0.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH-------
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL-------   90 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------   90 (352)
                      +..|-+.+..+=....++.|.|++|+|||+|+.+++..........+|+.    .......+..-+..+--.+       
T Consensus       259 i~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis----~e~~~~~i~~~~~~~g~~~~~~~~~g  334 (509)
T PRK09302        259 VPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFA----FEESRAQLIRNARSWGIDLEKMEEKG  334 (509)
T ss_pred             cHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE----ecCCHHHHHHHHHHcCCChHHHhhcC


Q ss_pred             ---hcccCCCccchhhhHHHHHhhhCC-ceEEEEEeCC
Q 045677           91 ---LMLADNSIRNVYDGVNMIGSRLRH-KKVLLLIDDV  124 (352)
Q Consensus        91 ---~~~~~~~~~~~~~~~~~~~~~l~~-~~~llvlDd~  124 (352)
                         .................+...+.. +.-++|||.+
T Consensus       335 ~l~i~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDsl  372 (509)
T PRK09302        335 LLKIICARPESYGLEDHLIIIKREIEEFKPSRVAIDPL  372 (509)
T ss_pred             CceeecCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCH

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=96.52  E-value=0.012  Score=60.67  Aligned_cols=36  Identities=22%  Similarity=0.158  Sum_probs=27.6

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|.+.+..    .++++|+|++|+||||.+-+++....
T Consensus        72 ~~~Il~~l~~----~~vvii~g~TGSGKTTqlPq~lle~~  107 (1283)
T TIGR01967        72 REDIAEAIAE----NQVVIIAGETGSGKTTQLPKICLELG  107 (1283)
T ss_pred             HHHHHHHHHh----CceEEEeCCCCCCcHHHHHHHHHHcC
Confidence            3556666652    36899999999999999988877654

This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.52  E-value=0.0028  Score=51.71  Aligned_cols=25  Identities=24%  Similarity=0.259  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+++|.|.+|+||||++..++.++
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3689999999999999999999874

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.51  E-value=0.0056  Score=51.28  Aligned_cols=47  Identities=19%  Similarity=0.178  Sum_probs=31.9

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      |-+.+..+=....++.|.|++|+|||+|+.+++....+....+.|+.
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34444432234688999999999999999999877544434444543

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.51  E-value=0.0021  Score=52.69  Aligned_cols=23  Identities=43%  Similarity=0.612  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ++.|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

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.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.51  E-value=0.0061  Score=54.00  Aligned_cols=93  Identities=19%  Similarity=0.162  Sum_probs=51.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      ..++|.|+.|+||||+++.+...+..+. ..+.+.+.....-....      ... .+...............+.+...+
T Consensus       161 ~nili~G~tgSGKTTll~aL~~~ip~~~-ri~tiEd~~El~l~~~~------n~~-~~~~~~~~~~~~~~~~~~ll~~~L  232 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTNAALREIPAIE-RLITVEDAREIVLSNHP------NRV-HLLASKGGQGRAKVTTQDLIEACL  232 (332)
T ss_pred             CcEEEECCCCCCHHHHHHHHHhhCCCCC-eEEEecCCCccccccCC------CEE-EEEecCCCCCcCcCcHHHHHHHHh
Confidence            6699999999999999999988765432 22222211111100000      000 000000011111223456677778


Q ss_pred             CCceEEEEEeCCCChhhhhhh
Q 045677          113 RHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~~l  133 (352)
                      +.++=.||++++.+.+.+..+
T Consensus       233 R~~PD~IivGEiR~~ea~~~l  253 (332)
T PRK13900        233 RLRPDRIIVGELRGAEAFSFL  253 (332)
T ss_pred             ccCCCeEEEEecCCHHHHHHH
Confidence            888889999999887766543

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=96.50  E-value=0.0041  Score=49.51  Aligned_cols=36  Identities=28%  Similarity=0.378  Sum_probs=30.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeee
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD   68 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~   68 (352)
                      ..+.|-|++|+|||+|..+.+..+++.|...+.-.+
T Consensus        14 ~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~D   49 (202)
T COG0378          14 LRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGD   49 (202)
T ss_pred             EEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEece
Confidence            678899999999999999999999888876665543

>PRK14530 adenylate kinase; Provisional

Probab=96.50  E-value=0.0025  Score=52.96  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.|+|.|++|+||||+++.++..+.
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4588999999999999999987763

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

Probab=96.50  E-value=0.0021  Score=51.80  Aligned_cols=23  Identities=39%  Similarity=0.671  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +|.|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999876

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.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.50  E-value=0.019  Score=49.00  Aligned_cols=27  Identities=22%  Similarity=0.228  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+-+.|.|.+|+|||+|+..+++...
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~   94 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAG   94 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhh
Confidence            346678999999999999999887653

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.50  E-value=0.0034  Score=55.52  Aligned_cols=48  Identities=21%  Similarity=0.306  Sum_probs=36.2

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .-..++|.+..++.|.-.+..  .+..-+++.|++|+|||++|+.+..-+
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~--~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAID--PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhc--cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            345679999998877754431  122458999999999999999998765

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.50  E-value=0.012  Score=54.75  Aligned_cols=29  Identities=24%  Similarity=0.242  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|+|++|+||||++..++..+..+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            35789999999999999999988775443

>PRK13949 shikimate kinase; Provisional

Probab=96.49  E-value=0.0027  Score=50.57  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=22.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      -++|+|++|+||||+++.++..+.-
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~   27 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGL   27 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4889999999999999999988753

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

Probab=96.49  E-value=0.0047  Score=50.63  Aligned_cols=36  Identities=31%  Similarity=0.444  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      .+.|+|-||+||||++..++.++.......+...++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVDa   37 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVDA   37 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEeC
Confidence            478999999999999999777765554456666554

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.49  E-value=0.0061  Score=55.59  Aligned_cols=23  Identities=43%  Similarity=0.666  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-.+.|.||+|+|||||++.+.-
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHc
Confidence            35788999999999999998864

>PRK06761 hypothetical protein; Provisional

Probab=96.49  E-value=0.0036  Score=53.75  Aligned_cols=27  Identities=37%  Similarity=0.633  Sum_probs=24.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++++|.|++|+||||+++.++..+...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            689999999999999999999987654

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.49  E-value=0.019  Score=50.67  Aligned_cols=27  Identities=30%  Similarity=0.284  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .=+-|+++||+|+|||-||+.++.+-.
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc~  270 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATECG  270 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhhc
Confidence            346689999999999999999997754

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.47  E-value=0.0028  Score=49.49  Aligned_cols=23  Identities=39%  Similarity=0.583  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|+|++|+||||+++.++..+.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            68999999999999999998764

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=96.46  E-value=0.027  Score=51.06  Aligned_cols=87  Identities=20%  Similarity=0.116  Sum_probs=56.9

Q ss_pred             CcCcccccHHHHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC----cHHHH
Q 045677            8 PKELVGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG----SVISL   82 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~l   82 (352)
                      +---|||+.+++.+.+-|.. ..++..+-+|.|.=|+|||.+++.+......+.-....+ ++... .+..    -...+
T Consensus        24 ~~~~VGr~~e~~~l~~~l~~v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~~~~fvvs~v-~ls~e-~~lh~~~g~~~~~  101 (416)
T PF10923_consen   24 DHIAVGREREIEALDRDLDRVADGGSSFKFIRGEYGSGKTFFLRLIRERALEKGFVVSEV-DLSPE-RPLHGTGGQLEAL  101 (416)
T ss_pred             cceeechHHHHHHHHHHHHHHhCCCCeEEEEEeCCCCcHHHHHHHHHHHHHHcCCEEEEE-ecCCC-cccccccccHHHH
Confidence            34459999999999998875 345667888999999999999999888754442222222 22221 1112    33556


Q ss_pred             HHHHHHHHhcccCC
Q 045677           83 QKQLLSDLLMLADN   96 (352)
Q Consensus        83 ~~~~~~~~~~~~~~   96 (352)
                      .++++..+......
T Consensus       102 Yr~l~~nL~t~~~p  115 (416)
T PF10923_consen  102 YRELMRNLSTKTKP  115 (416)
T ss_pred             HHHHHHhcCCCCCC
Confidence            66777666554443

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>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=96.46  E-value=0.0023  Score=53.31  Aligned_cols=25  Identities=48%  Similarity=0.627  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++.|.|++|+|||||++.+...+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            4789999999999999999988753

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

>PLN02200 adenylate kinase family protein

Probab=96.45  E-value=0.0033  Score=52.89  Aligned_cols=26  Identities=19%  Similarity=0.141  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.+++|.|++|+||||++..++...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35678999999999999999998765

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.44  E-value=0.014  Score=49.45  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.|.|.+|+||||++..+...++..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~   26 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFARE   26 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999887654

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

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.44  E-value=0.0026  Score=50.33  Aligned_cols=21  Identities=38%  Similarity=0.278  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|+|.+|+|||||+..+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999977

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.43  E-value=0.0039  Score=48.77  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=23.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++.|+|+.|+|||||+..+...++..
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            36799999999999999999988665

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

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=96.43  E-value=0.011  Score=59.53  Aligned_cols=27  Identities=19%  Similarity=0.217  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+++|+|.+|+||||++..+...+...
T Consensus       363 ~v~vv~G~AGTGKTT~l~~~~~~~e~~  389 (988)
T PRK13889        363 DLGVVVGYAGTGKSAMLGVAREAWEAA  389 (988)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            467799999999999988776665443

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.43  E-value=0.0061  Score=49.49  Aligned_cols=42  Identities=31%  Similarity=0.379  Sum_probs=30.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+|.+.....|.-....    .+-++++|++|+|||.+|+.+..-
T Consensus         4 dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    4 DIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHHh
Confidence            567887777766655552    267899999999999999998763

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.42  E-value=0.097  Score=51.26  Aligned_cols=25  Identities=24%  Similarity=0.251  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.++|+.|+||||.+..++..+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            4799999999999999999998765

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.41  E-value=0.0028  Score=51.38  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+++|.|++|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478899999999999999997654

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.41  E-value=0.028  Score=49.96  Aligned_cols=35  Identities=23%  Similarity=0.217  Sum_probs=25.9

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |-+.|..+=....++.|+|++|+|||+|+.+++..
T Consensus       112 LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~  146 (342)
T PLN03186        112 LDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVT  146 (342)
T ss_pred             HHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHH
Confidence            44444433234688889999999999999888754

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

Probab=96.40  E-value=0.0029  Score=51.23  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=19.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      ..+++|.||+|+|||||.+-+-
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN   49 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLN   49 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4789999999999999987653

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

Probab=96.37  E-value=0.008  Score=50.72  Aligned_cols=23  Identities=35%  Similarity=0.492  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..+++|.||.|+|||||.+.++.
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            47899999999999999999876

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.37  E-value=0.0033  Score=55.25  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++++.|++|+||||+|+.+...+
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            678899999999999999998775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	352
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-39
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-38
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-35
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-19

>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 =  145 bits (366), Expect = 4e-39
 Identities = 45/366 (12%), Positives = 108/366 (29%), Gaps = 50/366 (13%)

Query: 2   NSELEIPKELVGMESRLEKL-KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVY----DLM 56
              +         E  ++++ K L      D   + + G  G GK+ +A         L+
Sbjct: 121 LGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLI 180

Query: 57  SHEFDGSSFL----ADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL 112
              +D   +L       +   D    ++ + K     L   +   + +V     +  + +
Sbjct: 181 GINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALI 240

Query: 113 RHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLK-LHRVEEVYKLEALN 171
                L + DDV   E +      R    L    ++TTRD  +     +  E  ++ +L 
Sbjct: 241 DRPNTLFVFDDVVQEETI------RWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLE 294

Query: 172 FDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQE 231
            DE +              E+  ++    ++ +SG P  + +       +  ++      
Sbjct: 295 IDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNN 353

Query: 232 RLKRDP-----------ENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYV--SKI 278
           +L+                 +   LQ   + L + +++                    K+
Sbjct: 354 KLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPP----GVDIPVKL 409

Query: 279 LDSCGFDPIIG-------------ISVLIEKSLLTVRENDRLW---MHDLLQEMGQQIVR 322
                   I               +  L ++  L   +   +    +  ++    + +V 
Sbjct: 410 WSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVD 469

Query: 323 RQSPDE 328
            Q+   
Sbjct: 470 AQTIAN 475

>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 =  143 bits (361), Expect = 7e-38
 Identities = 56/354 (15%), Positives = 126/354 (35%), Gaps = 79/354 (22%)

Query: 8   PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE----FDGS 63
            +  + +   L +L+          + + I G+ G GKT +A  V   +S++     D  
Sbjct: 134 LQPYLKLRQALLELR--------PAKNVLIDGVLGSGKTWVALDV--CLSYKVQCKMDFK 183

Query: 64  SFLADVRERCDKEGSVISLQK---QLLSDLLMLADNSIRNVYDGVNMIGSRLR------- 113
            F  +++     E  +  LQK   Q+  +    +D+S  N+   ++ I + LR       
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS-SNIKLRIHSIQAELRRLLKSKP 242

Query: 114 HKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHL------LKLHRVEEVYKL 167
           ++  LL++ +V + +           F L   I++TTR + +           +   +  
Sbjct: 243 YENCLLVLLNVQNAKAWNA-------FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295

Query: 168 EALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWR 227
             L  DE   L  LK  D     ++            +  P  +      +    +    
Sbjct: 296 MTLTPDEVKSLL-LKYLDC--RPQDLPREVL------TTNPRRLS-----IIAESIRDGL 341

Query: 228 STQERLKRDPENKILGILQISFDGLKEAE-KNIFLDVACFYK------------WENRDY 274
           +T +  K    +K+  I++ S + L+ AE + +F  ++ F              W +   
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401

Query: 275 --VSKILDSCGFDPIIGISVLIEKSLLTVREND-RLWMHDLLQEMGQQIVRRQS 325
             V  +++              + SL+  +  +  + +  +  E+  ++    +
Sbjct: 402 SDVMVVVNKL-----------HKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444

>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 =  135 bits (342), Expect = 1e-35
 Identities = 66/349 (18%), Positives = 122/349 (34%), Gaps = 63/349 (18%)

Query: 6   EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVY---DLMSHEFDG 62
           + P   V  +  +  ++  +     +   + I GM G GK+ LA        L+   F G
Sbjct: 121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPG 180

Query: 63  SSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR------HKK 116
                 V ++      ++   + L + L      S R   + +     RLR      H +
Sbjct: 181 GVHWVSVGKQDKSG--LLMKLQNLCTRLDQDESFSQRLPLN-IEEAKDRLRILMLRKHPR 237

Query: 117 VLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKL--HRVEEVYKLEALNFDE 174
            LL++DDV D   L         F     I++TTRD+ +          V    +L  ++
Sbjct: 238 SLLILDDVWDSWVL-------KAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEK 290

Query: 175 AFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLK 234
              +  L        L    E A   +K   G PL V ++ + L   P ++W    ++L+
Sbjct: 291 GLEILSLFVNMKKADLP---EQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQ 346

Query: 235 RD-----------PENKILGILQISFDGLKEAEKNIFLDVACFYKWENRDYV-------- 275
                            +   + IS + L+E  K+ + D++   K    D          
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQK----DVKVPTKVLCI 402

Query: 276 -----SKILDSCGFDPIIGISVLIEKSLLTVRENDRLW---MHDLLQEM 316
                ++ ++    +        + KSLL    N + +   +HDL  + 
Sbjct: 403 LWDMETEEVEDILQE-------FVNKSLLFCDRNGKSFRYYLHDLQVDF 444

>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 = 89.1 bits (221), Expect = 2e-19
 Identities = 65/335 (19%), Positives = 125/335 (37%), Gaps = 37/335 (11%)

Query: 6   EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVV---YDLMSHEFDG 62
           + P   V  +  +  ++  +   + +   + I+GM G GK+ LA      + L+   F G
Sbjct: 121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSG 180

Query: 63  SSFLADVRERCDKEGSVISLQK--QLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVL 118
                 + ++ DK G ++ LQ     L      +     N+ +  + +   +  +H + L
Sbjct: 181 GVHWVSIGKQ-DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSL 239

Query: 119 LLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLK--LHRVEEVYKLEALNFDEAF 176
           L++DDV D   L+        F     I++TTRD+ +    +     V     L  ++  
Sbjct: 240 LILDDVWDPWVLKA-------FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGL 292

Query: 177 RLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERLKRD 236
            +  L         E+    A   +K   G PL V  L+  L     ++W     +L+  
Sbjct: 293 EILSLF---VNMKKEDLPAEAHSIIKECKGSPLVV-SLIGALLRDFPNRWAYYLRQLQNK 348

Query: 237 PENKILG-----------ILQISFDGLKEAEKNIFLDVACFYKWEN--RDYVSKILDSCG 283
              +I              + IS + L+E  K+ + D++   K        +  + D   
Sbjct: 349 QFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLET 408

Query: 284 FDPIIGISVLIEKSLLTVREND---RLWMHDLLQE 315
            +    +   + KSLL    N      ++HDL  +
Sbjct: 409 EEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVD 443

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.91
2fna_A	357	Conserved hypothetical protein; structural genomic	99.89
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.83
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.75
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.73
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.73
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.69
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.59
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.55
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.48
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.38
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.37
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.35
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.35
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.25
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.23
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.22
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.19
3bos_A	242	Putative DNA replication factor; P-loop containing	99.18
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.13
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.11
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.09
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.04
3pvs_A	447	Replication-associated recombination protein A; ma	99.04
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.02
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.02
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.02
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.02
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.0
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.99
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.97
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.95
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.94
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.93
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.93
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.92
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.91
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.91
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.88
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.86
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.84
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.82
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.78
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.76
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.75
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.75
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.75
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.73
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.72
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.67
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.67
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.66
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.66
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.64
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.61
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.61
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.61
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.6
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.59
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.56
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.55
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.55
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.55
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.51
3co5_A	143	Putative two-component system transcriptional RES	98.42
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.39
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.37
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.36
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.36
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.28
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.26
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.25
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.21
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.17
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.99
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.97
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.95
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.88
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.7
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.68
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.57
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.57
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.56
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.56
3io5_A	333	Recombination and repair protein; storage dimer, i	97.54
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.53
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.48
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.45
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.33
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.33
2qgz_A	308	Helicase loader, putative primosome component; str	97.3
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.27
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.26
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.25
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.24
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.22
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	97.22
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.2
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.2
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.2
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.17
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.16
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.15
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.15
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.11
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.07
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.06
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.04
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.04
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.03
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	97.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.0
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.97
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.95
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.93
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.93
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.93
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.92
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.92
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.92
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.92
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.91
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.9
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.89
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.88
3ice_A	422	Transcription termination factor RHO; transcriptio	96.87
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.86
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.84
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.83
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.83
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.81
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.81
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.81
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.79
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.78
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.77
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.76
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.76
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.75
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.75
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.74
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.73
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.72
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.72
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.71
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.71
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.69
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.69
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.67
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.67
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.66
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.66
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.65
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.65
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.64
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.64
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.62
1via_A	175	Shikimate kinase; structural genomics, transferase	96.6
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.6
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.6
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.6
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.59
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.59
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.59
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.58
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.58
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.58
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.57
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.56
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.55
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.54
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.53
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.53
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.52
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.52
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.52
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.52
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.52
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.52
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.51
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.51
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.51
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.51
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.5
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.49
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.49
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.48
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.48
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.46
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.46
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.46
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.45
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.44
2xxa_A	433	Signal recognition particle protein; protein trans	96.44
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.43
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.41
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.4
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.4
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.39
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.39
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.38
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.37
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.36
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.36
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.35
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.35
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.35
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.34
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.34
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.33
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.33
3end_A	307	Light-independent protochlorophyllide reductase ir	96.32
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.32
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.31
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.31
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.31
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.31
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.28
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.28
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.27
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.27
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.26
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.26
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.25
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.24
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.23
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.21
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.19
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.19
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.19
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.18
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.18
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.17
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.17
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.15
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.15
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.15
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.14
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.12
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.1
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.08
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.07
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.05
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.04
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.03
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.01
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.01
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.0
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.0
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.99
2og2_A	359	Putative signal recognition particle receptor; nuc	95.95
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.95
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.94
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.94
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.93
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.92
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.92
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.92
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.9
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.9
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.88
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.87
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.86
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.86
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.86
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.85
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.82
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.82
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.81
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.81
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.8
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.8
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.79
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.79
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.79
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.79
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.78
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.78
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.77
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.76
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.75
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.72
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.71
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.71
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.7
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.68
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.67
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.67
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.66
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.66
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.6
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	95.6
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.59
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	95.59
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.58
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.58
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.58
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.58
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.57
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.57
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	95.57
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.56
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.55
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.55
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.55
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.54
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.54
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.53
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.53
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.52
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.51
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.5
1g6h_A	257	High-affinity branched-chain amino acid transport	95.5
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.5
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.5
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.5
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.48
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.48
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.47
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.47
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.47
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.46
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.46
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	95.46
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.44
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.43
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.43
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.43
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.41
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.41
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.39
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.38
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.36
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.36
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.34
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.34
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	95.34
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	95.33
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.3
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.29
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.29
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.28
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.28
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.27
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.27
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.27
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.25
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.24
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	95.24
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	95.22
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.22
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.21
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.21
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.21
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.19
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.19
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.18
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.16
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.15
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.14
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.13
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.11
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.11
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.11
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.11
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.1
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.1
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.09
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.09
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.09
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.08
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.08
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	95.08
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.08
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.07
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.06
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.06
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.05
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.04
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.03
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.02
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.01
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.01
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.99
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.99
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.99
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.98
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.96
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.95
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.93
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.92
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.91
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.91
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.91
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.91
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.9
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.88
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.87
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.87
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.87
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.86
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.85
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.85
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.83
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.82
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.81
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.81
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.8
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.8
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.8
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.76
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.76
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.76
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.76
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.75
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.74
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.74
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.73
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.73
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.72
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.72
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.71
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	94.71
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.71
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.7
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.69
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.69
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.68
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.68
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.67
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.67
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.67
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.67
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.65
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.63
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.63
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.63
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.62
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.62
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	94.62
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.61
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.61
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.6
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.6
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.6
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.6
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.6
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.58
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.58
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.57
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.53
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.52
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.52
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.5
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.5
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.49
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.49
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.49
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.48
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	94.47
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.44
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.44
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.44
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.43
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.43
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	94.41
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.4
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.36
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.36
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.35
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.34
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.33
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.32
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.31
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.3
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.25
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.25
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.24
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.22
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.19
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	94.18
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.16
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	94.15
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.14
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.14
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.13
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.13
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.13
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.09
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.09
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.08
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	94.08

>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=1.9e-39  Score=306.08  Aligned_cols=300  Identities=15%  Similarity=0.096  Sum_probs=219.8

Q ss_pred             ccccHHHHHHHHHHhcC-CCCeEEEEEEcCCCCcHHHHHHHHHH----HhcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677           12 VGMESRLEKLKFLMCTG-SNDVRTIGIWGMGGLGKTTLARVVYD----LMSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~-~~~~~~v~I~G~~GiGKT~La~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      |||+.++++|.++|... .+..++|.|+|+||+||||||.++++    .++.+|+..+|+. ++....  .....+...+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~-vs~~~~--~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK-DSGTAP--KSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE-CCCCST--THHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE-ECCCCC--CCHHHHHHHH
Confidence            49999999999999754 33579999999999999999999996    5788898888884 433221  2237788888


Q ss_pred             HHHHhcccC-C-----CccchhhhHHHHHhhhCCc-eEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhHhhhc
Q 045677           87 LSDLLMLAD-N-----SIRNVYDGVNMIGSRLRHK-KVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLH  159 (352)
Q Consensus        87 ~~~~~~~~~-~-----~~~~~~~~~~~~~~~l~~~-~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~~~~~  159 (352)
                      +..+..... .     ...+...+...+.+.+.++ ++||||||+|+.+.+ .+..     ..+++||||||+..+...+
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~  281 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAA  281 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHc
Confidence            888765422 1     1123455678889999996 999999999998765 2221     2689999999998887765


Q ss_pred             C-cccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHHHH-HccCC
Q 045677          160 R-VEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQER-LKRDP  237 (352)
Q Consensus       160 ~-~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~~~-~~~~~  237 (352)
                      . ....+.|++|+.+++++||.+.++.... .+..++...+|+++|+|+||||+.+|+.++.+. ++|...+.. +....
T Consensus       282 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~~  359 (549)
T 2a5y_B          282 SQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESRG  359 (549)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHHC
T ss_pred             CCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhccc
Confidence            4 3467999999999999999999765432 245677899999999999999999999987763 444333322 11111


Q ss_pred             chhHHHHHHhhhccCcHhhhhhhh-----------hhccCCCCCCHHHHHHHHHhc--CCC-----------chhchHHH
Q 045677          238 ENKILGILQISFDGLKEAEKNIFL-----------DVACFYKWENRDYVSKILDSC--GFD-----------PIIGISVL  293 (352)
Q Consensus       238 ~~~~~~~l~~~~~~L~~~~~~~l~-----------~ls~~~~~~~~~~l~~~~~~~--~~~-----------~~~~l~~L  293 (352)
                      ...+..++..+|+.|++..+.||.           +||+||+++..+  ..+|.+.  |+.           ...++++|
T Consensus       360 ~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L  437 (549)
T 2a5y_B          360 LVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRL  437 (549)
T ss_dssp             SSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHT
T ss_pred             HHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHH
Confidence            233444455555555555555555           999999887766  5677776  332           23479999


Q ss_pred             hhccceeecCC---CceehhHHHHHHHHHHHhhc
Q 045677          294 IEKSLLTVREN---DRLWMHDLLQEMGQQIVRRQ  324 (352)
Q Consensus       294 ~~~~li~~~~~---~~~~~H~lir~~~~~~~~~~  324 (352)
                      ++++||+....   ..|+||+++|+|+++.+.++
T Consensus       438 ~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~  471 (549)
T 2a5y_B          438 SKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQ  471 (549)
T ss_dssp             TTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTH
T ss_pred             HHcCCeeEecCCCceEEEeChHHHHHHHHHHHHH
Confidence            99999997643   35999999999999766554

>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=100.00  E-value=1.4e-37  Score=320.77  Aligned_cols=309  Identities=20%  Similarity=0.246  Sum_probs=245.4

Q ss_pred             CCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH---hcCCCcceeEeeeccccccCCCcH
Q 045677            3 SELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL---MSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         3 ~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      ..|..+..||||+.++++|.++|...++..++|.|+|+||+||||||.+++++   ...+|...+||..+..... . ..
T Consensus       118 ~~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~-~-~~  195 (1249)
T 3sfz_A          118 GVPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDK-S-GL  195 (1249)
T ss_dssp             TCCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCH-H-HH
T ss_pred             CCCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCc-h-HH
Confidence            35667788999999999999999765667899999999999999999999986   4566777776665544211 1 11


Q ss_pred             HHHHHHHHHHHhcccC---CCccchhhhHHHHHhhhCCc--eEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchh
Q 045677           80 ISLQKQLLSDLLMLAD---NSIRNVYDGVNMIGSRLRHK--KVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEH  154 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~--~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~  154 (352)
                      ...+..++..+.....   ........+...++..+.++  ++||||||+|+...+..+       ..+++||||||+..
T Consensus       196 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          196 LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTT
T ss_pred             HHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHH
Confidence            3334445555443221   22356677788888888876  999999999998877664       46889999999987


Q ss_pred             Hhhh-cCcccEEecCC-CCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHHHH
Q 045677          155 LLKL-HRVEEVYKLEA-LNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQER  232 (352)
Q Consensus       155 ~~~~-~~~~~~~~l~~-l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~~~  232 (352)
                      +... ......+.+.+ |+.+|++++|...+....   +..++...+|+++|+|+||||+.+|.+++.++ ..|..+++.
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~  344 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQ  344 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHH
Confidence            7643 34556788986 999999999998773322   22345688999999999999999999998876 578888888


Q ss_pred             HccCC-----------chhHHHHHHhhhccCcHhhhhhhhhhccCCCC--CCHHHHHHHHHhcCCCchhchHHHhhccce
Q 045677          233 LKRDP-----------ENKILGILQISFDGLKEAEKNIFLDVACFYKW--ENRDYVSKILDSCGFDPIIGISVLIEKSLL  299 (352)
Q Consensus       233 ~~~~~-----------~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~~li  299 (352)
                      +....           ...+..++..+|+.|+++++.||.+||+||++  ++.+.+..+|+.++......+++|++++||
T Consensus       345 l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~  424 (1249)
T 3sfz_A          345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLL  424 (1249)
T ss_dssp             HHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSC
T ss_pred             HhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccce
Confidence            75532           25688999999999999999999999999976  588899999988777788899999999999


Q ss_pred             eecCCCc---eehhHHHHHHHHHHHhhc
Q 045677          300 TVRENDR---LWMHDLLQEMGQQIVRRQ  324 (352)
Q Consensus       300 ~~~~~~~---~~~H~lir~~~~~~~~~~  324 (352)
                      +...++.   |+||+++|+|+++++.++
T Consensus       425 ~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          425 FCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             EEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             EEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            9887665   999999999999987654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=6e-37  Score=292.73  Aligned_cols=301  Identities=20%  Similarity=0.234  Sum_probs=228.0

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh---cCCCcceeEeeeccccccCCCcHH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM---SHEFDGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~   80 (352)
                      .|..+..||||+.++++|.+++....++.++|+|+|++|+||||||.+++++.   ..+|...++|.++....    . .
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~----~-~  193 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQD----K-S  193 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCC----H-H
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCc----h-H
Confidence            46677889999999999999998655567999999999999999999998764   56676555555443321    1 2


Q ss_pred             HHHHHH---HHHHhccc---CCCccchhhhHHHHHhhhCC--ceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677           81 SLQKQL---LSDLLMLA---DNSIRNVYDGVNMIGSRLRH--KKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus        81 ~l~~~~---~~~~~~~~---~~~~~~~~~~~~~~~~~l~~--~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      .+...+   ...+....   .....+.......+...+.+  +++||||||+|+...++.+       ..+++||+|||+
T Consensus       194 ~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~  266 (591)
T 1z6t_A          194 GLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESC
T ss_pred             HHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCC
Confidence            233333   23322111   12234556666777777765  7899999999997776653       458899999999


Q ss_pred             hhHhhhcCcccEEec---CCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHH
Q 045677          153 EHLLKLHRVEEVYKL---EALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRST  229 (352)
Q Consensus       153 ~~~~~~~~~~~~~~l---~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~  229 (352)
                      ..+..... ...+.+   .+|+.+|+.++|....+..   .....+.+..|+++|+|+|++|+++|..++..+ ..|...
T Consensus       267 ~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~  341 (591)
T 1z6t_A          267 KSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYY  341 (591)
T ss_dssp             GGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHH
T ss_pred             cHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHH
Confidence            87665433 233443   5899999999999887431   122235688999999999999999999998764 468887


Q ss_pred             HHHHccCC-----------chhHHHHHHhhhccCcHhhhhhhhhhccCCCC--CCHHHHHHHHHhcCCCchhchHHHhhc
Q 045677          230 QERLKRDP-----------ENKILGILQISFDGLKEAEKNIFLDVACFYKW--ENRDYVSKILDSCGFDPIIGISVLIEK  296 (352)
Q Consensus       230 ~~~~~~~~-----------~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~  296 (352)
                      .+.+....           ..++..++..+|+.|++..+.||.++|+||.+  ++.+.+..+|+.+.......+..|+++
T Consensus       342 l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~  421 (591)
T 1z6t_A          342 LKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNK  421 (591)
T ss_dssp             HHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhC
Confidence            77775432           25788999999999999999999999999875  677889999976655678889999999


Q ss_pred             cceeecCCC---ceehhHHHHHHHHHHH
Q 045677          297 SLLTVREND---RLWMHDLLQEMGQQIV  321 (352)
Q Consensus       297 ~li~~~~~~---~~~~H~lir~~~~~~~  321 (352)
                      |||+...++   +|+||+++|+|+++++
T Consensus       422 ~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          422 SLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             TSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             cCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            999866533   5999999999999883

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=6.8e-35  Score=280.93  Aligned_cols=279  Identities=18%  Similarity=0.174  Sum_probs=208.4

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH--hcCCCcceeEeeeccccccCCCcHHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL--MSHEFDGSSFLADVRERCDKEGSVISLQKQL   86 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (352)
                      ...|||+.++++|.++|... ++.++|.|+|++|+||||||.+++++  ++.+|+..++|.+++...   . ...++..+
T Consensus       128 k~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~---d-~~~IL~~L  202 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN---S-PETVLEML  202 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSS---S-HHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCC---C-HHHHHHHH
Confidence            34599999999999999853 34689999999999999999999974  677888766665554432   2 24555555


Q ss_pred             HHHHhccc---CCC-------ccchhhhHHHHHhhh---CCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677           87 LSDLLMLA---DNS-------IRNVYDGVNMIGSRL---RHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus        87 ~~~~~~~~---~~~-------~~~~~~~~~~~~~~l---~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ...+....   ...       ..+.......++..+   .++++||||||+|+.+.|+.+.       .+++||||||+.
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~  275 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFK  275 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccCh
Confidence            54332211   100       122344455566654   6799999999999988888763       588999999998


Q ss_pred             hHhhhcCcccEEecC------CCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCC--ChhH
Q 045677          154 HLLKLHRVEEVYKLE------ALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGR--PVDQ  225 (352)
Q Consensus       154 ~~~~~~~~~~~~~l~------~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~--~~~~  225 (352)
                      .+.........+.++      +|+.+|+++||.+.. +.. ..    +...   +.|+|+||||+.+|..++..  ....
T Consensus       276 ~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-~e----eL~~---eICgGLPLALkLaGs~Lr~k~~s~ee  346 (1221)
T 1vt4_I          276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-PQ----DLPR---EVLTTNPRRLSIIAESIRDGLATWDN  346 (1221)
T ss_dssp             HHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-TT----THHH---HHCCCCHHHHHHHHHHHHHSCSSHHH
T ss_pred             HHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-HH----HHHH---HHhCCCHHHHHHHHHHHhCCCCCHHH
Confidence            876543333345555      899999999998884 322 11    2222   34999999999999999876  4566


Q ss_pred             HHHHHHHHccCCchhHHHHHHhhhccCcHhh-hhhhhhhccCCCC--CCHHHHHHHHHhcCC-CchhchHHHhhccceee
Q 045677          226 WRSTQERLKRDPENKILGILQISFDGLKEAE-KNIFLDVACFYKW--ENRDYVSKILDSCGF-DPIIGISVLIEKSLLTV  301 (352)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~-~~~l~~ls~~~~~--~~~~~l~~~~~~~~~-~~~~~l~~L~~~~li~~  301 (352)
                      |...       ....+..++..+|+.|++.+ +.||.++|+||++  ++.+.+..+|..++. +....+++|+++|||+.
T Consensus       347 W~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~  419 (1221)
T 1vt4_I          347 WKHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK  419 (1221)
T ss_dssp             HHHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSB
T ss_pred             HhcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEE
Confidence            7542       25789999999999999999 9999999999986  467788999977642 46778999999999998


Q ss_pred             cC-CCceehhHHHHH
Q 045677          302 RE-NDRLWMHDLLQE  315 (352)
Q Consensus       302 ~~-~~~~~~H~lir~  315 (352)
                      .+ .++|+||+++++
T Consensus       420 d~~~~rYrMHDLllE  434 (1221)
T 1vt4_I          420 QPKESTISIPSIYLE  434 (1221)
T ss_dssp             CSSSSEEBCCCHHHH
T ss_pred             eCCCCEEEehHHHHH
Confidence            64 567999999987

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.91  E-value=3.5e-23  Score=184.76  Aligned_cols=295  Identities=13%  Similarity=0.061  Sum_probs=181.6

Q ss_pred             CCCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccc--cCCCcH
Q 045677            2 NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERC--DKEGSV   79 (352)
Q Consensus         2 ~~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~   79 (352)
                      |.|+..+..|+||+.+++.|.+++..+    +.++|+|++|+|||+|+.++++...     .+|+ ++....  ......
T Consensus         5 ~~~~~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~-~~~~~~~~~~~~~~   74 (350)
T 2qen_A            5 LRPKTRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GILI-DCRELYAERGHITR   74 (350)
T ss_dssp             CSCCCSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEEE-EHHHHHHTTTCBCH
T ss_pred             CCCCCChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEEE-EeecccccccCCCH
Confidence            567778889999999999999998842    6899999999999999999997752     3343 333221  011122


Q ss_pred             HHHHHHHHHHHhc---------------ccCC--CccchhhhHHHHHhhhCC-ceEEEEEeCCCChh--------hhhhh
Q 045677           80 ISLQKQLLSDLLM---------------LADN--SIRNVYDGVNMIGSRLRH-KKVLLLIDDVADVE--------QLRGL  133 (352)
Q Consensus        80 ~~l~~~~~~~~~~---------------~~~~--~~~~~~~~~~~~~~~l~~-~~~llvlDd~~~~~--------~~~~l  133 (352)
                      ..+...+...+..               ....  .......+...+...... ++++|||||++...        .+..+
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~  154 (350)
T 2qen_A           75 EELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL  154 (350)
T ss_dssp             HHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHH
Confidence            3444444433211               0000  112344455555544432 39999999996532        22222


Q ss_pred             hCCCCCCCCCceEEEEeCchhHhhh-----------c-CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHH
Q 045677          134 FGKRDWFGLGSMIIITTRDEHLLKL-----------H-RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFV  201 (352)
Q Consensus       134 ~~~~~~~~~~~~iiitsr~~~~~~~-----------~-~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~  201 (352)
                      +..+.....+.++|+|++.......           . +....+.+.+|+.+|+.+++..........  ..++.+..++
T Consensus       155 L~~~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~--~~~~~~~~i~  232 (350)
T 2qen_A          155 FAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD--VPENEIEEAV  232 (350)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHH
T ss_pred             HHHHHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHH
Confidence            2221111247789999886543111           1 123479999999999999998754221111  1235688999


Q ss_pred             HHcCCCchhHHHHHHhhcC-CChhHHHHHHHHHccCCchhHHHHHHhhhccC---cHhhhhhhhhhccCCCCCCHHHHHH
Q 045677          202 KYASGLPLAVDVLVSFLFG-RPVDQWRSTQERLKRDPENKILGILQISFDGL---KEAEKNIFLDVACFYKWENRDYVSK  277 (352)
Q Consensus       202 ~~~~G~Pl~i~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L---~~~~~~~l~~ls~~~~~~~~~~l~~  277 (352)
                      ..|+|+|++++.++..+.. .....+   ...+.    ..+...+...+..+   ++..+.++..+++  +..+...+..
T Consensus       233 ~~tgG~P~~l~~~~~~~~~~~~~~~~---~~~~~----~~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~~~~~~l~~  303 (350)
T 2qen_A          233 ELLDGIPGWLVVFGVEYLRNGDFGRA---MKRTL----EVAKGLIMGELEELRRRSPRYVDILRAIAL--GYNRWSLIRD  303 (350)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCHHHH---HHHHH----HHHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TCCSHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHhccccHhHH---HHHHH----HHHHHHHHHHHHHHHhCChhHHHHHHHHHh--CCCCHHHHHH
Confidence            9999999999998876432 121111   11111    12222233333444   6888999998888  3467777766


Q ss_pred             HHHh-----cCCCchhchHHHhhccceeecCCCcee-hhHHHHHHHH
Q 045677          278 ILDS-----CGFDPIIGISVLIEKSLLTVRENDRLW-MHDLLQEMGQ  318 (352)
Q Consensus       278 ~~~~-----~~~~~~~~l~~L~~~~li~~~~~~~~~-~H~lir~~~~  318 (352)
                      .+..     +......+++.|.+.|||... ++.|. .||++|++.+
T Consensus       304 ~~~~~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          304 YLAVKGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence            6522     112345679999999999987 45565 5999999864

>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=99.89  E-value=2.6e-22  Score=179.50  Aligned_cols=293  Identities=13%  Similarity=0.085  Sum_probs=173.6

Q ss_pred             CCCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccc-cCCCcHH
Q 045677            2 NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERC-DKEGSVI   80 (352)
Q Consensus         2 ~~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   80 (352)
                      |.|+..+..|+||+.+++.|.+ +..     ++++|+|++|+|||+|+.++++.....   .+|+ ++.... .......
T Consensus         6 ~~~~~~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~   75 (357)
T 2fna_A            6 TSPKDNRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLP---YIYL-DLRKFEERNYISYK   75 (357)
T ss_dssp             SSCCCSGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEE-EGGGGTTCSCCCHH
T ss_pred             CCCCCCHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEE-EchhhccccCCCHH
Confidence            5677788899999999999999 763     589999999999999999999887532   3444 333220 0001112


Q ss_pred             HHHHHHHHHHhc-------------c----c-CC----------CccchhhhHHHHHhhhCCceEEEEEeCCCChh----
Q 045677           81 SLQKQLLSDLLM-------------L----A-DN----------SIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----  128 (352)
Q Consensus        81 ~l~~~~~~~~~~-------------~----~-~~----------~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----  128 (352)
                      .+...+...+..             .    . ..          .......+...+.+... ++++|||||++..+    
T Consensus        76 ~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~  154 (357)
T 2fna_A           76 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRG  154 (357)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCc
Confidence            333333222210             0    0 00          01223334444433322 49999999995432    


Q ss_pred             -hhhhhhCCCCCCCCCceEEEEeCchhHhhh----------c--CcccEEecCCCCHhHHHHHHHhhhcC-CCCCchhHH
Q 045677          129 -QLRGLFGKRDWFGLGSMIIITTRDEHLLKL----------H--RVEEVYKLEALNFDEAFRLFCLKAFD-TYKPLEEYL  194 (352)
Q Consensus       129 -~~~~l~~~~~~~~~~~~iiitsr~~~~~~~----------~--~~~~~~~l~~l~~~e~~~ll~~~~~~-~~~~~~~~~  194 (352)
                       ++..++..+.....+.++|+|++.......          .  +....+.+.+|+.+|+.+++...... ...+. .  
T Consensus       155 ~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~-~--  231 (357)
T 2fna_A          155 VNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK-D--  231 (357)
T ss_dssp             CCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC-C--
T ss_pred             hhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCC-c--
Confidence             222222221111246789999987643211          1  12357999999999999999875421 11121 1  


Q ss_pred             HHHHHHHHHcCCCchhHHHHHHhhcC-CChhHHHHHHHHHccCCchhHHHHHHhhh---ccCcHhhhhhhhhhccCCCCC
Q 045677          195 ELAKCFVKYASGLPLAVDVLVSFLFG-RPVDQWRSTQERLKRDPENKILGILQISF---DGLKEAEKNIFLDVACFYKWE  270 (352)
Q Consensus       195 ~~~~~i~~~~~G~Pl~i~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~L~~~~~~~l~~ls~~~~~~  270 (352)
                        ...+++.|+|+|++++.++..+.. .+...+.   ..+.......+..-+...+   ..+++..+.++..+++  +. 
T Consensus       232 --~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~--g~-  303 (357)
T 2fna_A          232 --YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAI---NQTLEYAKKLILKEFENFLHGREIARKRYLNIMRTLSK--CG-  303 (357)
T ss_dssp             --HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHH---HHHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT--CB-
T ss_pred             --HHHHHHHhCCCHHHHHHHHHHHccccchHHHH---HHHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc--CC-
Confidence              178999999999999998877543 2222221   1111000011111122111   1688899999999998  34 


Q ss_pred             CHHHHHHHHH-hcC-----CCchhchHHHhhccceeecCCCcee-hhHHHHHHH
Q 045677          271 NRDYVSKILD-SCG-----FDPIIGISVLIEKSLLTVRENDRLW-MHDLLQEMG  317 (352)
Q Consensus       271 ~~~~l~~~~~-~~~-----~~~~~~l~~L~~~~li~~~~~~~~~-~H~lir~~~  317 (352)
                      +.+.+...+. ..+     ......++.|.+.|||...+ +.|+ .||++|+++
T Consensus       304 ~~~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~l  356 (357)
T 2fna_A          304 KWSDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLAF  356 (357)
T ss_dssp             CHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHHT
T ss_pred             CHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHhh
Confidence            7777765431 112     23467799999999999874 5566 689999875

>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=99.83  E-value=1.9e-19  Score=164.12  Aligned_cols=289  Identities=16%  Similarity=0.111  Sum_probs=170.4

Q ss_pred             CCCCCcCcccccHHHHHHHHHH-hc--CC--CCeEEEEE--EcCCCCcHHHHHHHHHHHhcCC-----CcceeEeeeccc
Q 045677            4 ELEIPKELVGMESRLEKLKFLM-CT--GS--NDVRTIGI--WGMGGLGKTTLARVVYDLMSHE-----FDGSSFLADVRE   71 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l-~~--~~--~~~~~v~I--~G~~GiGKT~La~~~~~~~~~~-----~~~~~~~~~~~~   71 (352)
                      |...|..|+||+.+++.|.+++ ..  .+  ...+.++|  +|++|+|||+|++.+++.+...     +...+.+.++..
T Consensus        17 ~~~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (412)
T 1w5s_A           17 ENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN   96 (412)
T ss_dssp             TTCCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGG
T ss_pred             CccCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCC
Confidence            4455688999999999999988 42  12  24577888  9999999999999999886542     122233332211


Q ss_pred             cccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC--CceEEEEEeCCCCh--------hhhhhhhCCCCCC-
Q 045677           72 RCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADV--------EQLRGLFGKRDWF-  140 (352)
Q Consensus        72 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~--------~~~~~l~~~~~~~-  140 (352)
                          ......++..++..+.........+.......+...+.  +++++|||||++..        +.+..+...+... 
T Consensus        97 ----~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~  172 (412)
T 1w5s_A           97 ----APNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP  172 (412)
T ss_dssp             ----CCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC
T ss_pred             ----CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcc
Confidence                12235677777776643322122233444555555543  67999999999543        3343333332211 


Q ss_pred             --C--CCceEEEEeCchhHhhh---------cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcC--
Q 045677          141 --G--LGSMIIITTRDEHLLKL---------HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYAS--  205 (352)
Q Consensus       141 --~--~~~~iiitsr~~~~~~~---------~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~--  205 (352)
                        .  .+..+|+||+...+...         .+....+.+++++.+++.+++..............++.+..+++.++  
T Consensus       173 ~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~  252 (412)
T 1w5s_A          173 SRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGED  252 (412)
T ss_dssp             CTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGG
T ss_pred             cCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHh
Confidence              2  44567778875442211         11233499999999999999976542111111122467888999999  


Q ss_pred             ----CCchhHHHHHHhhc------CC---ChhHHHHHHHHHccCCchhH-HHHHHhhhccCcHhhhhhhhhhccCC----
Q 045677          206 ----GLPLAVDVLVSFLF------GR---PVDQWRSTQERLKRDPENKI-LGILQISFDGLKEAEKNIFLDVACFY----  267 (352)
Q Consensus       206 ----G~Pl~i~~~~~~l~------~~---~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~L~~~~~~~l~~ls~~~----  267 (352)
                          |+|..+..++....      ..   ....+......       .. ...+...+..||+..+.++..++.+.    
T Consensus       253 ~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~-------~~~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~  325 (412)
T 1w5s_A          253 KGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE-------NEAASIQTHELEALSIHELIILRLIAEATLGGM  325 (412)
T ss_dssp             GTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH-------C------CCSSSSSCHHHHHHHHHHHHHHHTTC
T ss_pred             ccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-------HhccchHHHHHHcCCHHHHHHHHHHHHHHhcCC
Confidence                99987766554321      11   11112211111       11 34456678899999999999888643    


Q ss_pred             CCCCHHHHHH----HH-HhcCCC------chhchHHHhhccceeecC
Q 045677          268 KWENRDYVSK----IL-DSCGFD------PIIGISVLIEKSLLTVRE  303 (352)
Q Consensus       268 ~~~~~~~l~~----~~-~~~~~~------~~~~l~~L~~~~li~~~~  303 (352)
                      ..++...+..    +. ...+..      ...+++.|.+.|||....
T Consensus       326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          326 EWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             SSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             CCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEeec
Confidence            3455544322    22 222211      246789999999998753

>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=99.75  E-value=2.6e-16  Score=142.25  Aligned_cols=288  Identities=15%  Similarity=0.141  Sum_probs=171.8

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   79 (352)
                      ...|+.++||+.+++.+..++..    ..+..+.++|+|++|+|||+|++.++..+.... ...+++ ++..    ....
T Consensus        13 ~~~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i-~~~~----~~~~   87 (389)
T 1fnn_A           13 SYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYI-NGFI----YRNF   87 (389)
T ss_dssp             TCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEE-ETTT----CCSH
T ss_pred             ccCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEE-eCcc----CCCH
Confidence            34558899999999999998875    122234899999999999999999998876542 223333 2211    1222


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCC--hhhhhhhhCCCCCCC----CCceEEEEeC
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVAD--VEQLRGLFGKRDWFG----LGSMIIITTR  151 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~--~~~~~~l~~~~~~~~----~~~~iiitsr  151 (352)
                      ..+...++..+.................+...+  .+++.+|+||+++.  ...+..+...+....    .+..+|++++
T Consensus        88 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~  167 (389)
T 1fnn_A           88 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGH  167 (389)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEES
T ss_pred             HHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEEC
Confidence            566666666554322222223344444444444  35689999999964  344555544443211    3667787777


Q ss_pred             chhHhhhcC------cc-cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHc---------CCCchhHHHHH
Q 045677          152 DEHLLKLHR------VE-EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYA---------SGLPLAVDVLV  215 (352)
Q Consensus       152 ~~~~~~~~~------~~-~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~---------~G~Pl~i~~~~  215 (352)
                      .........      .. ..+.+++++.++..+++..............++.++.+++.+         +|+|..+..++
T Consensus       168 ~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l  247 (389)
T 1fnn_A          168 NDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDIL  247 (389)
T ss_dssp             STHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHH
T ss_pred             CchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHH
Confidence            553322211      11 369999999999999998775321111123347788899999         79988776655


Q ss_pred             HhhcC------C---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCC---C--CCCHHHHHHHHHh
Q 045677          216 SFLFG------R---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFY---K--WENRDYVSKILDS  281 (352)
Q Consensus       216 ~~l~~------~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~---~--~~~~~~l~~~~~~  281 (352)
                      .....      .   ..+...........       ..+...+..|+...+.++..++.+.   .  .++...+......
T Consensus       248 ~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~  320 (389)
T 1fnn_A          248 YRSAYAAQQNGRKHIAPEDVRKSSKEVLF-------GISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKI  320 (389)
T ss_dssp             HHHHHHHHHTTCSSCCHHHHHHHHHHHSC-------CCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHhh-------hhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHH
Confidence            44321      1   11222222222221       1233446778888888888777643   2  3555555433221


Q ss_pred             ----cC------CCchhchHHHhhccceeecCC
Q 045677          282 ----CG------FDPIIGISVLIEKSLLTVREN  304 (352)
Q Consensus       282 ----~~------~~~~~~l~~L~~~~li~~~~~  304 (352)
                          .+      ......+..|...|+|.....
T Consensus       321 ~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~  353 (389)
T 1fnn_A          321 VCEEYGERPRVHSQLWSYLNDLREKGIVETRQN  353 (389)
T ss_dssp             HHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC
T ss_pred             HHHHcCCCCCCHHHHHHHHHHHHhCCCeEEeee
Confidence                11      112456899999999987543

>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=99.73  E-value=4.6e-17  Score=146.97  Aligned_cols=288  Identities=17%  Similarity=0.106  Sum_probs=164.9

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC--CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC--cceeEeeeccccccCCCcH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG--SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF--DGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~--~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~   79 (352)
                      +...|..|+||+.+++.|.+++...  ....+.++|+|++|+|||+|++.++..+...+  ...+.+.++....    ..
T Consensus        15 ~~~~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~----~~   90 (386)
T 2qby_A           15 PDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQID----TP   90 (386)
T ss_dssp             SSCCCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHC----SH
T ss_pred             CccCCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCC----CH
Confidence            3455688999999999999988852  34457899999999999999999998875542  2222233222221    12


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC--CceEEEEEeCCCCh------hhhhhhhCCCCC-CCCCceEEEEe
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADV------EQLRGLFGKRDW-FGLGSMIIITT  150 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~------~~~~~l~~~~~~-~~~~~~iiits  150 (352)
                      ..+...++..+.................+...+.  +.+.+||||+++..      ..+..+...+.. ...+..+|++|
T Consensus        91 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~  170 (386)
T 2qby_A           91 YRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGIT  170 (386)
T ss_dssp             HHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEE
Confidence            4445555444322211112223444444444443  45899999999532      233333322211 13456677777


Q ss_pred             CchhHhhhc------Ccc-cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcC---CCchhHHHHHHhhc-
Q 045677          151 RDEHLLKLH------RVE-EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYAS---GLPLAVDVLVSFLF-  219 (352)
Q Consensus       151 r~~~~~~~~------~~~-~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~---G~Pl~i~~~~~~l~-  219 (352)
                      +........      +.. ..+.+++++.++..+++...............+..+.+++.++   |+|..+..++.... 
T Consensus       171 ~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~  250 (386)
T 2qby_A          171 NDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGE  250 (386)
T ss_dssp             SCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            755322211      111 4799999999999999987542111011122456677777777   99996554443321 


Q ss_pred             -----CC---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCC----CCCCHHHH-------HHHHH
Q 045677          220 -----GR---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFY----KWENRDYV-------SKILD  280 (352)
Q Consensus       220 -----~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~----~~~~~~~l-------~~~~~  280 (352)
                           ..   ....+.......       ....+...+..+++..+.++..++.+.    .+++...+       ...++
T Consensus       251 ~a~~~~~~~i~~~~v~~a~~~~-------~~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g  323 (386)
T 2qby_A          251 IAERMKDTKVKEEYVYMAKEEI-------ERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG  323 (386)
T ss_dssp             HHHHTTCSSCCHHHHHHHHHHH-------HHHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT
T ss_pred             HHHhcCCCccCHHHHHHHHHHH-------hhchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC
Confidence                 11   122233222222       224566778889998888888777432    22334322       22222


Q ss_pred             hcC---CCchhchHHHhhccceeec
Q 045677          281 SCG---FDPIIGISVLIEKSLLTVR  302 (352)
Q Consensus       281 ~~~---~~~~~~l~~L~~~~li~~~  302 (352)
                      ...   ......++.|...|+|+..
T Consensus       324 ~~~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          324 VEAVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             CCCCCHHHHHHHHHHHHhCCCEEEE
Confidence            222   1235678999999999864

>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=99.73  E-value=8.7e-16  Score=138.60  Aligned_cols=282  Identities=13%  Similarity=0.048  Sum_probs=168.7

Q ss_pred             CCcCcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC------C-cceeEeeeccccccCCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE------F-DGSSFLADVRERCDKEG   77 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~------~-~~~~~~~~~~~~~~~~~   77 (352)
                      .|+.|+||+.+++.+.+++..  .....+.++|+|++|+|||+|++.+++.+...      + ...+.+.++....   .
T Consensus        18 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~---~   94 (384)
T 2qby_B           18 VFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVG---G   94 (384)
T ss_dssp             HCSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHC---S
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCC---C
Confidence            357899999999999988775  23445789999999999999999999886332      2 2233333332221   0


Q ss_pred             cHHHHHHHHHHHHhcccCC-CccchhhhHHHHHhhhCCceEEEEEeCCCChh------h-hhhhhCCCCCCCCCceEEEE
Q 045677           78 SVISLQKQLLSDLLMLADN-SIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE------Q-LRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~------~-~~~l~~~~~~~~~~~~iiit  149 (352)
                      ....++..++..+.+.... ...........+...+...+.+|||||++...      . +..+....    .+..+|+|
T Consensus        95 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~  170 (384)
T 2qby_B           95 TPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMI  170 (384)
T ss_dssp             CHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEE
T ss_pred             CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEE
Confidence            2256666666665432221 12233455666666776665699999996432      2 33444332    57788888


Q ss_pred             eCchhH----hhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcC---CCchhHHHHHHhh--
Q 045677          150 TRDEHL----LKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYAS---GLPLAVDVLVSFL--  218 (352)
Q Consensus       150 sr~~~~----~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~---G~Pl~i~~~~~~l--  218 (352)
                      |+....    ...  .+....+.+++++.++..+++...+..........++.++.+++.++   |+|..+..+....  
T Consensus       171 t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~  250 (384)
T 2qby_B          171 SNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQ  250 (384)
T ss_dssp             CSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Confidence            876421    111  12234899999999999999988753111011112356777888887   9998554333222  


Q ss_pred             -c-C---CChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCCC-CCCHHHHHHHHHhcC---C---Cc
Q 045677          219 -F-G---RPVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFYK-WENRDYVSKILDSCG---F---DP  286 (352)
Q Consensus       219 -~-~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~~-~~~~~~l~~~~~~~~---~---~~  286 (352)
                       . .   -..+.+....+..       ....+...+..|++.++.++..++.... +-.......+....+   .   ..
T Consensus       251 ~a~~~~~i~~~~v~~~~~~~-------~~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~  323 (384)
T 2qby_B          251 LASGGGIIRKEHVDKAIVDY-------EQERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRF  323 (384)
T ss_dssp             HTTSSSCCCHHHHHHHHHHH-------HHHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHH
T ss_pred             HhcCCCccCHHHHHHHHHHH-------hcchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHH
Confidence             1 1   1233444333332       1234667788899999988887776111 101122223332222   1   12


Q ss_pred             hhchHHHhhccceeec
Q 045677          287 IIGISVLIEKSLLTVR  302 (352)
Q Consensus       287 ~~~l~~L~~~~li~~~  302 (352)
                      ...+..|.+.|+|+..
T Consensus       324 ~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          324 SDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHhCCCEEEE
Confidence            4568899999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.69  E-value=1.7e-15  Score=136.75  Aligned_cols=288  Identities=12%  Similarity=0.068  Sum_probs=167.3

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC--CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-----cceeEeeeccccccCC
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG--SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-----DGSSFLADVRERCDKE   76 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~--~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-----~~~~~~~~~~~~~~~~   76 (352)
                      +...|..|+||+.+++.+..++...  ....+.++|+|++|+|||++++.+++.+....     ...+.+.++..    .
T Consensus        14 ~~~~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~----~   89 (387)
T 2v1u_A           14 PDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARH----R   89 (387)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTT----S
T ss_pred             CccCCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCc----C
Confidence            3445688999999999999998642  34557899999999999999999998864421     22222332222    1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCChh-------hhhhhhCCCCCC--CCCce
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADVE-------QLRGLFGKRDWF--GLGSM  145 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~~-------~~~~l~~~~~~~--~~~~~  145 (352)
                      .....+...++..+.................+...+  .+++.+|+||+++...       .+..++......  ..+..
T Consensus        90 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~  169 (387)
T 2v1u_A           90 ETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVS  169 (387)
T ss_dssp             CSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CE
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEE
Confidence            222566667776664332222333445555555555  3568999999996433       223333222111  34567


Q ss_pred             EEEEeCchhHhhh-----c-Ccc-cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcC---CCchhHHHHH
Q 045677          146 IIITTRDEHLLKL-----H-RVE-EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYAS---GLPLAVDVLV  215 (352)
Q Consensus       146 iiitsr~~~~~~~-----~-~~~-~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~---G~Pl~i~~~~  215 (352)
                      +|++|+.......     . +.. ..+.+++++.++..+++..............++..+.+++.++   |+|..+..+.
T Consensus       170 ~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l  249 (387)
T 2v1u_A          170 LVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLL  249 (387)
T ss_dssp             EEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             EEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHH
Confidence            7777765422111     1 222 4789999999999999987642100011122355777888888   9996554433


Q ss_pred             Hhhc------CC---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhcc-CC--CCCCHHHHH----HHH
Q 045677          216 SFLF------GR---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVAC-FY--KWENRDYVS----KIL  279 (352)
Q Consensus       216 ~~l~------~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~-~~--~~~~~~~l~----~~~  279 (352)
                      ....      ..   ..+.+.......       ....+...+..+++.++.++..+.. +.  ..++...+.    .+.
T Consensus       250 ~~a~~~a~~~~~~~i~~~~v~~a~~~~-------~~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~  322 (387)
T 2v1u_A          250 RVAGEIAERRREERVRREHVYSARAEI-------ERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELT  322 (387)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHHHH-------HHHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcCHHHHHHHHHHH-------hhchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            3321      11   223333333332       1234666788999998888877763 32  123333222    222


Q ss_pred             HhcCC------CchhchHHHhhccceeec
Q 045677          280 DSCGF------DPIIGISVLIEKSLLTVR  302 (352)
Q Consensus       280 ~~~~~------~~~~~l~~L~~~~li~~~  302 (352)
                      ...+.      .....++.|...|+++..
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          323 STLGLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            22221      124568899999999874

>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=99.59  E-value=3.5e-14  Score=119.58  Aligned_cols=201  Identities=15%  Similarity=0.090  Sum_probs=120.1

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |.....|+||+.+++.|..++.... ..+.++|+|++|+|||+|++.+++.+..........+        ... .. ..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~--------~~~-~~-~~   87 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPC--------GVC-DN-CR   87 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCC--------SCS-HH-HH
T ss_pred             CccHHHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC--------ccc-HH-HH
Confidence            3444679999999999999998542 2357899999999999999999988654321110000        000 00 00


Q ss_pred             HHHHHH----hcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh
Q 045677           85 QLLSDL----LMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH  154 (352)
Q Consensus        85 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~  154 (352)
                      .+....    .................+...    ..+++.+|||||++.  ...+..++..+.....+..+|+||+...
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~  167 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  167 (250)
T ss_dssp             HHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            110000    000000001111111222211    134679999999953  4455555554443355778888876543


Q ss_pred             H-hh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          155 L-LK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       155 ~-~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      . .. .......+.+++++.++..+++..........  ..++..+.+++.++|+|..+..++..+
T Consensus       168 ~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          168 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1 11 12335689999999999999998766322211  224668899999999999998776654

>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=99.55  E-value=2.1e-13  Score=113.18  Aligned_cols=189  Identities=11%  Similarity=0.074  Sum_probs=115.0

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-..++||+..++.+.+++...  ..+.++|+|++|+|||+++..+++.+... +.......+..    .... ....
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~----~~~~-~~~~   85 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS----DERG-IDVV   85 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETT----CTTC-HHHH
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccc----cccC-hHHH
Confidence            444567999999999999999854  33348999999999999999999886433 22222222111    1111 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchhH-h-hhc
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEHL-L-KLH  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~~-~-~~~  159 (352)
                      ...+..+.....               ....++.+|+|||++..  .....+...+.....++.+|+|++.... . ...
T Consensus        86 ~~~~~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~  150 (226)
T 2chg_A           86 RHKIKEFARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQ  150 (226)
T ss_dssp             HHHHHHHHTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHhcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHH
Confidence            111111111000               11256889999999643  3344444333333456778888775421 1 112


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .....+.+.+++.++...++..........  ..++..+.+++.++|+|..+......
T Consensus       151 ~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          151 SRCAVFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhCceeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            334589999999999999998765321111  22466788999999999976654443

>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=99.48  E-value=1.7e-12  Score=114.09  Aligned_cols=184  Identities=11%  Similarity=0.177  Sum_probs=111.7

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      .....++||+..++.|.+++..+  ..+.++|+|++|+|||++|..+++.+... +...+...+...    ... ...+.
T Consensus        18 ~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----~~~-~~~i~   90 (323)
T 1sxj_B           18 QVLSDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD----DRG-IDVVR   90 (323)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS----CCS-HHHHH
T ss_pred             CCHHHHHCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcc----ccC-hHHHH
Confidence            33467999999999999999853  32338999999999999999999886332 222222221111    111 11222


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh-Hhh-hc
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH-LLK-LH  159 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~-~~  159 (352)
                      .++..+....               ..+ .+++.++||||++.  ......+...+.....++.+|++|.... +.+ ..
T Consensus        91 ~~~~~~~~~~---------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~  155 (323)
T 1sxj_B           91 NQIKHFAQKK---------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQ  155 (323)
T ss_dssp             THHHHHHHBC---------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHhcc---------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHH
Confidence            2222211000               001 34588999999964  3334444444433345677887776532 111 12


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHH
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDV  213 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~  213 (352)
                      .....+.+.+++.++..+++...+......  ..++.++.+++.++|+|..+..
T Consensus       156 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~a~~  207 (323)
T 1sxj_B          156 SQCAILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQAIN  207 (323)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhceEEeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            345589999999999999998765221111  2236678899999999965443

>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=99.38  E-value=1.4e-11  Score=108.35  Aligned_cols=191  Identities=14%  Similarity=0.127  Sum_probs=114.6

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-cceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF-DGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-..++|++..++.|..++..+  ..+.++|+|++|+|||++|+.+++.+.... ...+...+......     ....
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~-----~~~~   93 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG-----INVI   93 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH-----HHTT
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCc-----hHHH
Confidence            333466999999999999999854  333489999999999999999998864321 11122211111000     0000


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-Hhhh-c
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-LLKL-H  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~~-~  159 (352)
                      ...+..+....               ....+++.++|+|+++..  .....+...+.....++++|+|+.... +.+. .
T Consensus        94 ~~~~~~~~~~~---------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~  158 (327)
T 1iqp_A           94 REKVKEFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ  158 (327)
T ss_dssp             HHHHHHHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhC---------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHH
Confidence            11111100000               001256789999999643  344445444433355678888776542 1111 1


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhc
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLF  219 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~  219 (352)
                      .....+.+.+++.++...++...+.....  ...++.++.+++.++|+|..+......+.
T Consensus       159 sr~~~~~~~~l~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          159 SRCAIFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMRRAINILQAAA  216 (327)
T ss_dssp             HTEEEEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhCcEEEecCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            23457899999999999999876533221  12346788899999999997765554443

>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=99.37  E-value=4.3e-11  Score=104.83  Aligned_cols=188  Identities=10%  Similarity=0.057  Sum_probs=115.6

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc-CCCcceeEeeeccccccCCCcHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS-HEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      ..-..++|++..++.|.+++..+  ..+.++|+|++|+|||++|..+++.+. ..+...+...+.......... .....
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~   90 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVV-RHKIK   90 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTS-SHHHH
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHH-HHHHH
Confidence            33466999999999999998853  333489999999999999999998863 222222222222111110011 11111


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-Hh-hhcC
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-LL-KLHR  160 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~~-~~~~  160 (352)
                      .+...    .               ....+++.++|||+++..  .....+...+.....++.+|+++.... +. ....
T Consensus        91 ~~~~~----~---------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~s  151 (319)
T 2chq_A           91 EFART----A---------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQS  151 (319)
T ss_dssp             HHHHS----C---------------CSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHT
T ss_pred             HHHhc----C---------------CCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHh
Confidence            11100    0               001246789999999643  445666666655556777787776442 11 1123


Q ss_pred             cccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          161 VEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       161 ~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      ....+.+.+++.++...++...+......  ..++.++.++..++|++..+......
T Consensus       152 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~l~~  206 (319)
T 2chq_A          152 RCAVFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQG  206 (319)
T ss_dssp             TCEEEECCCCCHHHHHHHHHHHHHTTCCC--BCHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             hCeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            44689999999999999998776432221  23467888999999999876654443

>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=99.35  E-value=4.4e-11  Score=105.07  Aligned_cols=257  Identities=17%  Similarity=0.081  Sum_probs=149.3

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..-..|+|++..++.+..++..   .....+.++|+|++|+|||++|+.+++.....+   .++ +....    .....
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~---~~~-~~~~~----~~~~~   79 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVT-SGPAI----EKPGD   79 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCE---EEE-CTTTC----CSHHH
T ss_pred             cccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCE---EEE-ecccc----CChHH
Confidence            34456799999999999888763   122346789999999999999999998774322   222 11111    11011


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh--hhhhhhCCCCCC------------------C
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE--QLRGLFGKRDWF------------------G  141 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~--~~~~l~~~~~~~------------------~  141 (352)
                      +.                      ..+... ...+.+|+||+++...  ....++..+...                  .
T Consensus        80 l~----------------------~~l~~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~  136 (324)
T 1hqc_A           80 LA----------------------AILANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLEL  136 (324)
T ss_dssp             HH----------------------HHHTTT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEEC
T ss_pred             HH----------------------HHHHHh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCC
Confidence            11                      111110 1345699999996532  222222111100                  0


Q ss_pred             CCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhh
Q 045677          142 LGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       142 ~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      .+..+|.+|.... +...  .+....+.+++++.++...++..........  ..++.++.+++.+.|+|..+..+...+
T Consensus       137 ~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          137 PRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CCCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            2355666665432 1111  1233589999999999999988776332211  234678889999999999988776665


Q ss_pred             cCCC---------hhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhc-cC-CCCCCHHHHHHHHHhcCCCch
Q 045677          219 FGRP---------VDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVA-CF-YKWENRDYVSKILDSCGFDPI  287 (352)
Q Consensus       219 ~~~~---------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls-~~-~~~~~~~~l~~~~~~~~~~~~  287 (352)
                      ....         ...+.....            .+......++..++..+..+. .+ .+.++...+++.++.......
T Consensus       215 ~~~a~~~~~~~i~~~~~~~~~~------------~~~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~  282 (324)
T 1hqc_A          215 RDFAQVAGEEVITRERALEALA------------ALGLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLE  282 (324)
T ss_dssp             TTTSTTTSCSCCCHHHHHHHHH------------HHTCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHH------------HhcccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHH
Confidence            3311         111111111            122233456676666766544 33 345678888777655433444


Q ss_pred             hchHH-HhhccceeecCCCc
Q 045677          288 IGISV-LIEKSLLTVRENDR  306 (352)
Q Consensus       288 ~~l~~-L~~~~li~~~~~~~  306 (352)
                      ..++. +++.|+|+....|.
T Consensus       283 ~~l~~~~i~~~li~~~~~g~  302 (324)
T 1hqc_A          283 EVHEPYLIRQGLLKRTPRGR  302 (324)
T ss_dssp             HHTHHHHHHTTSEEEETTEE
T ss_pred             HHHhHHHHHhcchhcCCccc
Confidence            44555 88899998876554

>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=99.35  E-value=8.9e-11  Score=105.20  Aligned_cols=199  Identities=16%  Similarity=0.135  Sum_probs=115.8

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..-..++||+..++.|...+..+. ..+.++|+|++|+|||++++.+++.+.......  ..       .... -..+..
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~--~~-------~~~~-~~~~~~   81 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT--AT-------PCGV-CDNCRE   81 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC--SS-------CCSS-SHHHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC--CC-------CCcc-cHHHHH
Confidence            344569999999999999998532 245788999999999999999998864332100  00       0000 001111


Q ss_pred             HHHH----HhcccC---CCccchhhhHHHHHhh-hCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh-
Q 045677           86 LLSD----LLMLAD---NSIRNVYDGVNMIGSR-LRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH-  154 (352)
Q Consensus        86 ~~~~----~~~~~~---~~~~~~~~~~~~~~~~-l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~-  154 (352)
                      +...    +.....   ........+...+... ..+++.++||||++.  ......++..+.....+..+|++|.... 
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  161 (373)
T 1jr3_A           82 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (373)
T ss_dssp             HHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGG
T ss_pred             HhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence            1100    000000   0111222222211111 134678999999964  3445555554444455667777765432 


Q ss_pred             H-hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          155 L-LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       155 ~-~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      + .........+.+.+++.++...++..........  ..++.++.+++.++|+|..+......
T Consensus       162 l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~--~~~~a~~~l~~~~~G~~r~~~~~l~~  223 (373)
T 1jr3_A          162 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTDQ  223 (373)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             CcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            1 1122345789999999999999998765221111  22366788999999999988766543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.25  E-value=6.5e-11  Score=102.33  Aligned_cols=170  Identities=12%  Similarity=-0.011  Sum_probs=99.0

Q ss_pred             CcccccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHH
Q 045677           10 ELVGMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      .+.||+.|++++...|..  ..+..+.++|+|++|+|||++++.++..+....      ...+...++......    ..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~----~~   96 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGM----DA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC------HH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCH----HH
Confidence            378999999999988775  245668899999999999999999999875432      112222222222222    56


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhh--hCCceEEEEEeCCCCh---hhhhhhhCCCCCCCCCceEEEEeCchh--
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSR--LRHKKVLLLIDDVADV---EQLRGLFGKRDWFGLGSMIIITTRDEH--  154 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~~llvlDd~~~~---~~~~~l~~~~~~~~~~~~iiitsr~~~--  154 (352)
                      +...++.++.+...........+...+...  ..+++++++||+++..   +.+-.++...........+|.++....  
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence            666777776543222222222333333322  2457899999999754   223333221111122334444443221  


Q ss_pred             ---Hhhhc--Cc-ccEEecCCCCHhHHHHHHHhhh
Q 045677          155 ---LLKLH--RV-EEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       155 ---~~~~~--~~-~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                         +....  +. ...+.+++++.+|..+++..+.
T Consensus       177 ~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          177 REQINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence               11111  12 2578999999999999998876

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.23  E-value=3e-10  Score=100.39  Aligned_cols=256  Identities=15%  Similarity=0.069  Sum_probs=147.9

Q ss_pred             CCCcCcccccHHHHHHHHHHhcC---CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTG---SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~---~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ..-..++|++..++.+..++...   ....+.++|+|++|+|||++|+.+++.....|    ...+....    .. ...
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~----~~~~~~~~----~~-~~~   96 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI----KTTAAPMI----EK-SGD   96 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE----EEEEGGGC----CS-HHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe----EEecchhc----cc-hhH
Confidence            34467999999999999988752   33446789999999999999999988765432    11111111    01 111


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCC------------------CC
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWF------------------GL  142 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~------------------~~  142 (352)
                      ....                     +..  ...+.+|+||+++..  .....++..+...                  .+
T Consensus        97 ~~~~---------------------~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~  153 (338)
T 3pfi_A           97 LAAI---------------------LTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLP  153 (338)
T ss_dssp             HHHH---------------------HHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCC
T ss_pred             HHHH---------------------HHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCC
Confidence            1111                     111  235669999999643  2222222111100                  11


Q ss_pred             CceEEEEeCchhH-hhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhc
Q 045677          143 GSMIIITTRDEHL-LKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLF  219 (352)
Q Consensus       143 ~~~iiitsr~~~~-~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~  219 (352)
                      +..+|.+|..... .+.  .+....+.+++++.++...++........  ....++..+.+.+.+.|+|..+..+...+.
T Consensus       154 ~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~--~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~  231 (338)
T 3pfi_A          154 KFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN--KTCEEKAALEIAKRSRSTPRIALRLLKRVR  231 (338)
T ss_dssp             CCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CEECHHHHHHHHHTTTTCHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            3456655554321 111  13346899999999999999887653221  112346778888899999977766554421


Q ss_pred             C------C---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhccCC-CCCCHHHHHHHHHhcCCCchhc
Q 045677          220 G------R---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVACFY-KWENRDYVSKILDSCGFDPIIG  289 (352)
Q Consensus       220 ~------~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~~~-~~~~~~~l~~~~~~~~~~~~~~  289 (352)
                      .      .   ..........            .+......+...++.++..++... +.++...++..++.+.....+.
T Consensus       232 ~~a~~~~~~~i~~~~~~~~~~------------~~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~  299 (338)
T 3pfi_A          232 DFADVNDEEIITEKRANEALN------------SLGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDV  299 (338)
T ss_dssp             HHHHHTTCSEECHHHHHHHHH------------HHTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHT
T ss_pred             HHHHhhcCCccCHHHHHHHHH------------HhCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHH
Confidence            1      1   1111111111            122223345555566665555442 3457888887776554455556


Q ss_pred             hH-HHhhccceeecCCCce
Q 045677          290 IS-VLIEKSLLTVRENDRL  307 (352)
Q Consensus       290 l~-~L~~~~li~~~~~~~~  307 (352)
                      ++ .|++.|+|.....|+.
T Consensus       300 l~~~l~~~gli~~~~~g~~  318 (338)
T 3pfi_A          300 IEPYLLANGYIERTAKGRI  318 (338)
T ss_dssp             THHHHHHTTSEEEETTEEE
T ss_pred             HhHHHHHcCceecCCCccc
Confidence            66 8999999998876654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.22  E-value=6.9e-11  Score=95.37  Aligned_cols=49  Identities=12%  Similarity=0.195  Sum_probs=42.0

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .-..++||+.+++.+.+++..  ...+.++|+|++|+|||++++.+++.+.
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQR--RTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS--SSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhc--CCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            446799999999999999985  3446789999999999999999998864

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.19  E-value=5.6e-10  Score=99.83  Aligned_cols=205  Identities=14%  Similarity=0.057  Sum_probs=109.2

Q ss_pred             CcCcccccHHHHHH---HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            8 PKELVGMESRLEKL---KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         8 ~~~~vGR~~~l~~l---~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      -+.|+|++..++.+   ...+..+....+.++|+|++|+|||++|+.+++.+.......  ...................
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~  120 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFT--AIAGSEIFSLEMSKTEALT  120 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEE--EEEGGGGSCSSSCHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcc--cccchhhhhcccchhHHHH
Confidence            45799999997764   444454333346899999999999999999999886442211  1111111111111122222


Q ss_pred             HHHHHHhccc----------------------------CC-C---ccchhhhHHHHHhhh--CCc----eEEEEEeCCCC
Q 045677           85 QLLSDLLMLA----------------------------DN-S---IRNVYDGVNMIGSRL--RHK----KVLLLIDDVAD  126 (352)
Q Consensus        85 ~~~~~~~~~~----------------------------~~-~---~~~~~~~~~~~~~~l--~~~----~~llvlDd~~~  126 (352)
                      ..........                            .. .   ...............  .++    +.+|+||+++.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~  200 (368)
T 3uk6_A          121 QAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHM  200 (368)
T ss_dssp             HHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGG
T ss_pred             HHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhccc
Confidence            2222211100                            00 0   111111111111111  122    46999999964


Q ss_pred             h--hhhhhhhCCCCCCCCCceEEEEeCc-------------hhH-hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCc
Q 045677          127 V--EQLRGLFGKRDWFGLGSMIIITTRD-------------EHL-LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPL  190 (352)
Q Consensus       127 ~--~~~~~l~~~~~~~~~~~~iiitsr~-------------~~~-~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~  190 (352)
                      .  .....+...+...... .+++++..             ..+ ....+....+.+++++.++..+++...+...... 
T Consensus       201 l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~-  278 (368)
T 3uk6_A          201 LDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVE-  278 (368)
T ss_dssp             SBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCC-
T ss_pred             cChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCC-
Confidence            3  3344454444432333 33433321             111 1122334568999999999999998765322211 


Q ss_pred             hhHHHHHHHHHHHcC-CCchhHHHHHHh
Q 045677          191 EEYLELAKCFVKYAS-GLPLAVDVLVSF  217 (352)
Q Consensus       191 ~~~~~~~~~i~~~~~-G~Pl~i~~~~~~  217 (352)
                       ..++.++.+++.+. |+|..+..+...
T Consensus       279 -~~~~~l~~l~~~~~~G~~r~~~~ll~~  305 (368)
T 3uk6_A          279 -MSEDAYTVLTRIGLETSLRYAIQLITA  305 (368)
T ss_dssp             -BCHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence             23467888999998 898877655443

>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=99.18  E-value=1.2e-10  Score=97.53  Aligned_cols=175  Identities=14%  Similarity=0.079  Sum_probs=101.2

Q ss_pred             CcCccccc---HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            8 PKELVGME---SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         8 ~~~~vGR~---~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      -++|+|++   ..++.+..+...  +..+.++|+|++|+|||+|++.++...........++. ........        
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~-~~~~~~~~--------   95 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASG--DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP-LGIHASIS--------   95 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHT--CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-GGGGGGSC--------
T ss_pred             hhhccCCCCCHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHHHH--------
Confidence            35688743   556677777663  24578999999999999999999988765433334433 22211110        


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhh----hhhhhCCCCCC-CCC-ceEEEEeCchh----
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ----LRGLFGKRDWF-GLG-SMIIITTRDEH----  154 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~----~~~l~~~~~~~-~~~-~~iiitsr~~~----  154 (352)
                                       ...    ... ..++.+|||||++....    ...+...+... ..+ ..+|+|++...    
T Consensus        96 -----------------~~~----~~~-~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~  153 (242)
T 3bos_A           96 -----------------TAL----LEG-LEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAG  153 (242)
T ss_dssp             -----------------GGG----GTT-GGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTT
T ss_pred             -----------------HHH----HHh-ccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHH
Confidence                             000    000 13456999999953211    22222221100 112 24777776332    


Q ss_pred             -----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          155 -----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       155 -----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                           +.........+.+++++.++..+++.........  ...++.++.+++.++|++..+..+...
T Consensus       154 ~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~l~~~l~~  219 (242)
T 3bos_A          154 FVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL--QLPEDVGRFLLNRMARDLRTLFDVLDR  219 (242)
T ss_dssp             CCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC--CCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHccCCHHHHHHHHHH
Confidence                 1111112268999999999999999876532211  123467888999999998877655443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.13  E-value=1.4e-09  Score=93.60  Aligned_cols=186  Identities=15%  Similarity=0.131  Sum_probs=106.2

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccc
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTG-----------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRER   72 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~-----------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~   72 (352)
                      |...-..++|.+..++.|.+.+...           ....+.++|+|++|+|||+||+.++......+    ........
T Consensus        12 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~----~~v~~~~~   87 (285)
T 3h4m_A           12 PNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATF----IRVVGSEL   87 (285)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEE----EEEEGGGG
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE----EEEehHHH
Confidence            3344567999999999998877531           13446799999999999999999998864432    22212111


Q ss_pred             ccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------------hhhhhhhCC
Q 045677           73 CDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------------EQLRGLFGK  136 (352)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------------~~~~~l~~~  136 (352)
                      ......  ..                  .......+.......+.+|+||+++..                ..+..++..
T Consensus        88 ~~~~~~--~~------------------~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~  147 (285)
T 3h4m_A           88 VKKFIG--EG------------------ASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAE  147 (285)
T ss_dssp             CCCSTT--HH------------------HHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHH
T ss_pred             HHhccc--hH------------------HHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHH
Confidence            111100  00                  011112222233456789999999543                112222222


Q ss_pred             CC--CCCCCceEEEEeCchhH-----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-Cc
Q 045677          137 RD--WFGLGSMIIITTRDEHL-----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LP  208 (352)
Q Consensus       137 ~~--~~~~~~~iiitsr~~~~-----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~P  208 (352)
                      +.  ....+..+|.||.....     ....++...+.+++.+.++..+++...........   ......++..+.| .|
T Consensus       148 ~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~---~~~~~~l~~~~~g~~~  224 (285)
T 3h4m_A          148 MDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAE---DVNLEEIAKMTEGCVG  224 (285)
T ss_dssp             HHTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCT---TCCHHHHHHHCTTCCH
T ss_pred             hhCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCC---cCCHHHHHHHcCCCCH
Confidence            11  11235567777764322     11124445799999999999999987763322211   1225667788877 55


Q ss_pred             hhHHHHHH
Q 045677          209 LAVDVLVS  216 (352)
Q Consensus       209 l~i~~~~~  216 (352)
                      ..|..++.
T Consensus       225 ~~i~~l~~  232 (285)
T 3h4m_A          225 AELKAICT  232 (285)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            56655443

>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=99.11  E-value=2.5e-09  Score=99.72  Aligned_cols=197  Identities=16%  Similarity=0.128  Sum_probs=107.5

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcC---------------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTG---------------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~---------------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      |..-..++|++..++.|.+++...               .+..+.++|+|++|+|||++|+.+++.+..    .+...++
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~----~~i~in~  110 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY----DILEQNA  110 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC----EEEEECT
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCC----CEEEEeC
Confidence            334467999999999999999741               013478999999999999999999988731    2222222


Q ss_pred             cccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-----hhhhhhhCCCCCCCCCc
Q 045677           70 RERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-----EQLRGLFGKRDWFGLGS  144 (352)
Q Consensus        70 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-----~~~~~l~~~~~~~~~~~  144 (352)
                      ...    .. .......+.......  .....-..... .....+++.+|+||+++..     ..+..+...+.  ..+.
T Consensus       111 s~~----~~-~~~~~~~i~~~~~~~--~~~~~~~~~~~-~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~--~~~~  180 (516)
T 1sxj_A          111 SDV----RS-KTLLNAGVKNALDNM--SVVGYFKHNEE-AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTST  180 (516)
T ss_dssp             TSC----CC-HHHHHHTGGGGTTBC--CSTTTTTC-----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSS
T ss_pred             CCc----ch-HHHHHHHHHHHhccc--cHHHHHhhhhh-hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHH--hcCC
Confidence            111    11 122222211111100  00000000000 0012357889999999532     11233332222  1233


Q ss_pred             eEEEEeCch---hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          145 MIIITTRDE---HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       145 ~iiitsr~~---~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .+|+++.+.   .+....+....+.+++++.++..+++...+......  ..++.+..|++.++|++..+......
T Consensus       181 ~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~--i~~~~l~~la~~s~GdiR~~i~~L~~  254 (516)
T 1sxj_A          181 PLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLIQTTRGDIRQVINLLST  254 (516)
T ss_dssp             CEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHTTTCHHHHHHHHTH
T ss_pred             CEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            455544432   223333455689999999999998887654221111  11255788999999977665544333

>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=99.09  E-value=2.8e-09  Score=94.66  Aligned_cols=198  Identities=10%  Similarity=0.078  Sum_probs=111.9

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-..++|++..++.|..++..+.  .+.++|+|++|+|||++++.++..+...  +...+...+...    ... ...
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~----~~~-~~~  105 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD----ERG-ISI  105 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS----CCC-HHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCC--CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc----ccc-hHH
Confidence            3344678999999999999998542  2338999999999999999999876421  221222221111    011 122


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-Hhhh-
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-LLKL-  158 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~~-  158 (352)
                      +......+...........     .....-.+.+-+|+||+++..  .....++..+.......++|+++.... +.+. 
T Consensus       106 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l  180 (353)
T 1sxj_D          106 VREKVKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPL  180 (353)
T ss_dssp             HTTHHHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             HHHHHHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchh
Confidence            2222222111111000000     000111235679999999532  333444433333344566676664332 2111 


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ......+.+.+++.++....+...+......  ..++.++.+++.++|+|..+.....
T Consensus       181 ~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~l~  236 (353)
T 1sxj_D          181 ASQCSKFRFKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLRRGITLLQ  236 (353)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHHHHHHHHH
T ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            2234578999999999999998765322211  2346788999999999987655433

>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=99.04  E-value=4.6e-09  Score=89.78  Aligned_cols=170  Identities=12%  Similarity=0.081  Sum_probs=95.0

Q ss_pred             CcCcccccHHHHHHHHH-------Hhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677            8 PKELVGMESRLEKLKFL-------MCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~-------l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      ...++|+...++.+...       +.. .....+.++|+|++|+|||++|+.+++.....|   +.+... .  ......
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~---~~i~~~-~--~~~g~~  105 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPF---IKICSP-D--KMIGFS  105 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSE---EEEECG-G--GCTTCC
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCE---EEEeCH-H--HhcCCc
Confidence            45789999887777662       321 245568899999999999999999998754332   112111 0  000000


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh------------hhhhhhhCCCC---CCCCCc
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV------------EQLRGLFGKRD---WFGLGS  144 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~------------~~~~~l~~~~~---~~~~~~  144 (352)
                      ..                 .........+.......+.+|+||+++..            ..+..+...+.   ......
T Consensus       106 ~~-----------------~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~  168 (272)
T 1d2n_A          106 ET-----------------AKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKL  168 (272)
T ss_dssp             HH-----------------HHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEE
T ss_pred             hH-----------------HHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCE
Confidence            00                 00011112223333466889999998542            11222222222   122344


Q ss_pred             eEEEEeCchhHhhh----cCcccEEecCCCCH-hHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC
Q 045677          145 MIIITTRDEHLLKL----HRVEEVYKLEALNF-DEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL  207 (352)
Q Consensus       145 ~iiitsr~~~~~~~----~~~~~~~~l~~l~~-~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~  207 (352)
                      .||.||........    .++...+.+++++. ++...++....   ..    ..+.+..+++.+.|.
T Consensus       169 ~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~---~~----~~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          169 LIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG---NF----KDKERTTIAQQVKGK  229 (272)
T ss_dssp             EEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT---CS----CHHHHHHHHHHHTTS
T ss_pred             EEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC---CC----CHHHHHHHHHHhcCC
Confidence            46666665533222    23456789999988 66777665532   11    235677888888885

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.04  E-value=1.6e-09  Score=98.68  Aligned_cols=180  Identities=17%  Similarity=0.210  Sum_probs=107.3

Q ss_pred             CCcCcccccHHH---HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRL---EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l---~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .-+.+||.+..+   +.|...+..+  ..+.++|+|++|+|||+||+.+++.....|.    ..+.     .... ...+
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~----~l~a-----~~~~-~~~i   91 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVE----RISA-----VTSG-VKEI   91 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEE----EEET-----TTCC-HHHH
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeE----EEEe-----ccCC-HHHH
Confidence            346789999998   7888888843  3467999999999999999999988754321    1111     1111 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh--hhhhhhCCCCCCCCCceEEEEe-Cchh--H-hh
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE--QLRGLFGKRDWFGLGSMIIITT-RDEH--L-LK  157 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~--~~~~l~~~~~~~~~~~~iiits-r~~~--~-~~  157 (352)
                      ..++....                 .....+++.+|+||+++...  ..+.++..+..  ....+|.+| .+..  + ..
T Consensus        92 r~~~~~a~-----------------~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           92 REAIERAR-----------------QNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHHHHHH-----------------HHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHH
T ss_pred             HHHHHHHH-----------------HhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHH
Confidence            22211100                 01113567899999996432  23333333321  234444444 4332  1 12


Q ss_pred             hcCcccEEecCCCCHhHHHHHHHhhhcCCC-----CCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          158 LHRVEEVYKLEALNFDEAFRLFCLKAFDTY-----KPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       158 ~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~-----~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .......+.+++++.++...++........     ......++.++.+++.++|++..+..+...
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~  217 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEM  217 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            223456889999999999999988764311     122234577888999999999877655444

>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=99.02  E-value=4.2e-09  Score=93.57  Aligned_cols=200  Identities=11%  Similarity=0.031  Sum_probs=107.5

Q ss_pred             CCCcCcccccHHHHHHHHHH-hcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeee----------------
Q 045677            6 EIPKELVGMESRLEKLKFLM-CTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLAD----------------   68 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l-~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~----------------   68 (352)
                      ..-..++|++..++.|..++ ..+ .... ++|+|++|+||||+++.++..+.......+.+..                
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~~-~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQPR-DLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTT-CCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhCC-CCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            33467899999999999988 532 2234 8999999999999999999865322211111110                


Q ss_pred             -------ccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCC
Q 045677           69 -------VRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDW  139 (352)
Q Consensus        69 -------~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~  139 (352)
                             .......... ....+..+..+.......     ... .+. .+..++-++|||+++..  .....++..+..
T Consensus        89 ~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~-----~~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~  160 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNND-RIVIQELLKEVAQMEQVD-----FQD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEK  160 (354)
T ss_dssp             ECSSEEEECCC----CC-HHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHH
T ss_pred             cccceEEecHhhcCCcc-hHHHHHHHHHHHHhcccc-----ccc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHh
Confidence                   0000000000 001111111111000000     000 000 01336779999999653  233444443332


Q ss_pred             CCCCceEEEEeCch-hHh-hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhH-HHHHHHHHHHcCCCchhHHHHHH
Q 045677          140 FGLGSMIIITTRDE-HLL-KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEY-LELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       140 ~~~~~~iiitsr~~-~~~-~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~-~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ...++.+|++|.+. .+. ........+++++++.++...++...+......  .. ++.++.+++.++|++..+.....
T Consensus       161 ~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          161 YSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             STTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             hcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCCHHHHHHHHH
Confidence            34467777776643 222 222345789999999999999998765221111  12 36678899999999987765544


Q ss_pred             h
Q 045677          217 F  217 (352)
Q Consensus       217 ~  217 (352)
                      .
T Consensus       239 ~  239 (354)
T 1sxj_E          239 S  239 (354)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.02  E-value=2.5e-08  Score=87.36  Aligned_cols=183  Identities=17%  Similarity=0.149  Sum_probs=105.4

Q ss_pred             cCcccccHHHHHHHHHHh----------cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMC----------TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~----------~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ..++|.+..++.|.+.+.          ......+.++|+|++|+|||+||+.++......|    +..+....      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~----~~v~~~~l------   87 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF----FSVSSSDL------   87 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEE----EEEEHHHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCE----EEEchHHH------
Confidence            568999999999998772          1222346799999999999999999998864432    22211111      


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCC---CCCC
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRD---WFGL  142 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~---~~~~  142 (352)
                              .....+      .........+.......+.+|+||+++...             ....++..+.   ....
T Consensus        88 --------~~~~~g------~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           88 --------VSKWMG------ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             --------HTTTGG------GHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             --------hhcccc------hHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence                    100000      001111122222234567899999996331             1222222221   1234


Q ss_pred             CceEEEEeCchhH-hhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHHHHHh
Q 045677          143 GSMIIITTRDEHL-LKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDVLVSF  217 (352)
Q Consensus       143 ~~~iiitsr~~~~-~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~~~~~  217 (352)
                      +..||.||..... .+.  .++...+.++..+.++..+++..........  .....+..+++.+.| .+-.|..++..
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~l~~la~~t~g~sg~di~~l~~~  230 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCV--LTKEDYRTLGAMTEGYSGSDIAVVVKD  230 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC--CCHHHHHHHHHTTTTCCHHHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            4556656654321 111  1445678899999999999998876432211  123567888999987 45566655544

>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=99.02  E-value=3e-08  Score=84.09  Aligned_cols=185  Identities=14%  Similarity=0.125  Sum_probs=101.9

Q ss_pred             CcCcccccHHHHHHHHHHhc---C-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT---G-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~---~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      -..++|.+...+.|.+++..   .       ....+.++|+|++|+|||++|+.++......+    +..+.........
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~----~~~~~~~~~~~~~   80 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPF----LAMAGAEFVEVIG   80 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCE----EEEETTTTSSSST
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE----EEechHHHHhhcc
Confidence            35689999988888765432   1       12346689999999999999999998765432    2222211111110


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-----------------hhhhhhhCCCCC-
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-----------------EQLRGLFGKRDW-  139 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-----------------~~~~~l~~~~~~-  139 (352)
                      .                    .........+.......+.+|+||+++..                 ..+..++..+.. 
T Consensus        81 ~--------------------~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~  140 (262)
T 2qz4_A           81 G--------------------LGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGM  140 (262)
T ss_dssp             T--------------------HHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTC
T ss_pred             C--------------------hhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCc
Confidence            0                    00011112222333356789999999653                 112233222111 


Q ss_pred             -CCCCceEEEEeCchhHh-hh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch-hHH
Q 045677          140 -FGLGSMIIITTRDEHLL-KL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL-AVD  212 (352)
Q Consensus       140 -~~~~~~iiitsr~~~~~-~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-~i~  212 (352)
                       ...+..+|.||...... ..    .+....+.++..+.++..+++........... ........++..+.|++- .|.
T Consensus       141 ~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~-~~~~~~~~l~~~~~g~~~~~l~  219 (262)
T 2qz4_A          141 GTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQ-SSTFYSQRLAELTPGFSGADIA  219 (262)
T ss_dssp             CTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCB-THHHHHHHHHHTCTTCCHHHHH
T ss_pred             CCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCc-chhhHHHHHHHHCCCCCHHHHH
Confidence             12345566666543211 11    13446788999999999998887653222221 222345778888888754 565


Q ss_pred             HHHHh
Q 045677          213 VLVSF  217 (352)
Q Consensus       213 ~~~~~  217 (352)
                      .++..
T Consensus       220 ~l~~~  224 (262)
T 2qz4_A          220 NICNE  224 (262)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55444

>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=99.02  E-value=2.4e-08  Score=88.72  Aligned_cols=184  Identities=11%  Similarity=0.032  Sum_probs=104.6

Q ss_pred             CCcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .-..++|.+..++.|.+.+..          .....+.++|+|++|+|||+||+.++......    ++..+........
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~----~~~i~~~~l~~~~  157 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGAT----FFSISASSLTSKW  157 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCE----EEEEEGGGGCCSS
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCe----EEEEehHHhhccc
Confidence            336789999999999887752          12345679999999999999999999876432    2222222221111


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhH-HHHHhhhCCceEEEEEeCCCCh-------------hhhhhhhCCCC----
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGV-NMIGSRLRHKKVLLLIDDVADV-------------EQLRGLFGKRD----  138 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~llvlDd~~~~-------------~~~~~l~~~~~----  138 (352)
                      ..                     ...... ..+.......+.+|+||+++..             .....++..+.    
T Consensus       158 ~g---------------------~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~  216 (357)
T 3d8b_A          158 VG---------------------EGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATT  216 (357)
T ss_dssp             TT---------------------HHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC---
T ss_pred             cc---------------------hHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccc
Confidence            00                     001111 1112222356789999999432             11222222211    


Q ss_pred             CCCCCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHHH
Q 045677          139 WFGLGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDVL  214 (352)
Q Consensus       139 ~~~~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~~  214 (352)
                      ....+..||.||.... +...  .+....+.++..+.++..+++...+......  .....++.+++.+.| .+..|..+
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            1123445555665332 1111  1344578899999999888887765322111  123668889999998 55566666


Q ss_pred             HHh
Q 045677          215 VSF  217 (352)
Q Consensus       215 ~~~  217 (352)
                      +..
T Consensus       295 ~~~  297 (357)
T 3d8b_A          295 CRE  297 (357)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.00  E-value=2.9e-09  Score=92.75  Aligned_cols=150  Identities=15%  Similarity=0.151  Sum_probs=87.7

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc---ceeEeeeccccc
Q 045677           10 ELVGMESRLEKLKFLMCTG-------------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD---GSSFLADVRERC   73 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~-------------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~---~~~~~~~~~~~~   73 (352)
                      .++|.+...+.|.+++...             ......++|+|++|+|||++|+.+++.+.....   ..+...+.....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            5899999998888765421             233457899999999999999999887643211   122222221111


Q ss_pred             cCC-CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCC-----------ChhhhhhhhCCCCCCC
Q 045677           74 DKE-GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVA-----------DVEQLRGLFGKRDWFG  141 (352)
Q Consensus        74 ~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~-----------~~~~~~~l~~~~~~~~  141 (352)
                      ... +.                     ........+...   .+.+|+||+++           .......++..+....
T Consensus       112 ~~~~g~---------------------~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~  167 (309)
T 3syl_A          112 GQYIGH---------------------TAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNR  167 (309)
T ss_dssp             CSSTTC---------------------HHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCT
T ss_pred             hhcccc---------------------cHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCC
Confidence            100 00                     001111111111   23599999996           3333445554444334


Q ss_pred             CCceEEEEeCchhHhh-------h-cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          142 LGSMIIITTRDEHLLK-------L-HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       142 ~~~~iiitsr~~~~~~-------~-~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      .+..+|+|+.......       . .+....+.+++++.++...++....
T Consensus       168 ~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l  217 (309)
T 3syl_A          168 DDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHML  217 (309)
T ss_dssp             TTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHH
T ss_pred             CCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHH
Confidence            5667777776432211       1 1233689999999999999987765

>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=98.99  E-value=5.8e-09  Score=95.17  Aligned_cols=186  Identities=17%  Similarity=0.103  Sum_probs=104.5

Q ss_pred             cCcc-cccHHH--HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc-ceeEeeeccccccCCCcHHHHHH
Q 045677            9 KELV-GMESRL--EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD-GSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         9 ~~~v-GR~~~l--~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      +.|+ |....+  ..+......... ...++|+|++|+|||+||+.+++.+...+. ..+.+.+.          ..+..
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~----------~~~~~  173 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS----------EKFLN  173 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEH----------HHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH----------HHHHH
Confidence            3466 755444  344444443322 678999999999999999999988754432 22222221          12222


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----hhhhhhhCCCCC-CCCCceEEEEeCchh-----
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----EQLRGLFGKRDW-FGLGSMIIITTRDEH-----  154 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----~~~~~l~~~~~~-~~~~~~iiitsr~~~-----  154 (352)
                      .+...+...      .    ...+.......+.+|+|||++..    ...+.++..+.. ...+..||+||.+..     
T Consensus       174 ~~~~~~~~~------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~  243 (440)
T 2z4s_A          174 DLVDSMKEG------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSE  243 (440)
T ss_dssp             HHHHHHHTT------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSS
T ss_pred             HHHHHHHcc------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHH
Confidence            333222211      0    11233333336779999999532    222333332211 134667888887531     


Q ss_pred             ----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          155 ----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       155 ----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                          +...+.....+.+++++.++...++...+......  ..++.+..|+..+.|++.-+..+...
T Consensus       244 l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~--i~~e~l~~la~~~~gn~R~l~~~L~~  308 (440)
T 2z4s_A          244 FQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLRGAIIK  308 (440)
T ss_dssp             CCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHCCSCHHHHHHHHHH
T ss_pred             HHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHHHHHHH
Confidence                11112223578899999999999988765211111  11255778899999999877655443

>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=98.97  E-value=3.5e-08  Score=86.51  Aligned_cols=183  Identities=16%  Similarity=0.135  Sum_probs=100.8

Q ss_pred             CcCcc-cccHH--HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            8 PKELV-GMESR--LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         8 ~~~~v-GR~~~--l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      -++|+ |....  .+.+.............++|+|++|+|||+|++.+++.+.......+++. .          ..+..
T Consensus        10 f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~-~----------~~~~~   78 (324)
T 1l8q_A           10 LENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-A----------DDFAQ   78 (324)
T ss_dssp             SSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-H----------HHHHH
T ss_pred             cccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE-H----------HHHHH
Confidence            34565 65443  34555555543334567999999999999999999988754322223332 2          12222


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----hhhhhhCCCCC-CCCCceEEEEeCchh-----
Q 045677           85 QLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----QLRGLFGKRDW-FGLGSMIIITTRDEH-----  154 (352)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----~~~~l~~~~~~-~~~~~~iiitsr~~~-----  154 (352)
                      .+...+...      ..    ..+.... ..+.+|+|||++...    ....++..+.. ...+..+|+|+.+..     
T Consensus        79 ~~~~~~~~~------~~----~~~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~  147 (324)
T 1l8q_A           79 AMVEHLKKG------TI----NEFRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDG  147 (324)
T ss_dssp             HHHHHHHHT------CH----HHHHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTT
T ss_pred             HHHHHHHcC------cH----HHHHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHH
Confidence            222222110      11    1122222 236799999995432    22222222210 123557777775431     


Q ss_pred             ----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          155 ----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       155 ----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                          +.........+.+++ +.++...++...+.....  ...++.++.+++.+ |++-.+..+..
T Consensus       148 l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~--~l~~~~l~~l~~~~-g~~r~l~~~l~  209 (324)
T 1l8q_A          148 VSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNL--ELRKEVIDYLLENT-KNVREIEGKIK  209 (324)
T ss_dssp             SCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTC--CCCHHHHHHHHHHC-SSHHHHHHHHH
T ss_pred             hhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhC-CCHHHHHHHHH
Confidence                111112225789999 999999999877632221  12246788899999 98876654433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.95  E-value=1.2e-07  Score=82.84  Aligned_cols=184  Identities=16%  Similarity=0.102  Sum_probs=103.8

Q ss_pred             cCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ..++|-+...+.|.+.+..          .....+.++|+||+|+|||+||+.++......   .++...........  
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~---~~~~i~~~~l~~~~--   86 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS---TFFSISSSDLVSKW--   86 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC---EEEEEECCSSCCSS--
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC---cEEEEEhHHHHhhh--
Confidence            5689999988888876631          12234679999999999999999999886211   12222111111000  


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCC---CCCC
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRD---WFGL  142 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~---~~~~  142 (352)
                                      .  ..........+......++.+|+||+++...             ....++..+.   ....
T Consensus        87 ----------------~--g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           87 ----------------L--GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             ----------------C--CSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             ----------------h--hHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                            0  0011111112222224578899999996431             1122222211   1123


Q ss_pred             CceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC-chhHHHHHHh
Q 045677          143 GSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL-PLAVDVLVSF  217 (352)
Q Consensus       143 ~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Pl~i~~~~~~  217 (352)
                      +..+|.||.... +.+.  .+....+.++..+.++..+++..........  ..+..+..+++.+.|+ +..|..++..
T Consensus       149 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--l~~~~l~~la~~t~G~sgadl~~l~~~  225 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNS--LTEADFRELGRKTDGYSGADISIIVRD  225 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBC--CCHHHHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            445555554331 1111  1455678899999999999888766332211  1235678899999987 5557666554

>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=98.94  E-value=5.9e-08  Score=86.00  Aligned_cols=184  Identities=18%  Similarity=0.161  Sum_probs=104.1

Q ss_pred             CcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      =..++|.+..++.|.+.+..          .....+.++|+|++|+|||+||+.++......|    +..+....     
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~----~~v~~~~l-----  120 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF----FSVSSSDL-----  120 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEE----EEEEHHHH-----
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEeeHHHH-----
Confidence            35689999999999887631          112235689999999999999999998875332    22211111     


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCC---CCC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRD---WFG  141 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~---~~~  141 (352)
                               ...+.    .  .........+.......+.+|+||+++...             ....++..+.   ...
T Consensus       121 ---------~~~~~----g--~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          121 ---------VSKWM----G--ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             ---------HSCC---------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             ---------hhhhc----c--hHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence                     00000    0  001111112222224578899999996432             1223322221   112


Q ss_pred             CCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHHHHHHh
Q 045677          142 LGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVDVLVSF  217 (352)
Q Consensus       142 ~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~~~~~~  217 (352)
                      .+..||.||.... +...  .+....+.++..+.++..+++..........  .....+..|++.+.| .+..|..++..
T Consensus       186 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--~~~~~l~~la~~t~G~sg~dl~~l~~~  263 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSV--LTKEDYRTLGAMTEGYSGSDIAVVVKD  263 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBC--CCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3455555655332 1111  1455678899999999999988776332211  123567889999998 45566665543

>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=98.93  E-value=2e-08  Score=88.10  Aligned_cols=184  Identities=15%  Similarity=0.082  Sum_probs=106.4

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..-+.++|++..++.|.+++..+ ...+.++++|++|+|||++++.+++.+...    +...+...    ..  ...+..
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~-~~~~~~L~~G~~G~GKT~la~~la~~l~~~----~~~i~~~~----~~--~~~i~~   91 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKG-KIPHIILHSPSPGTGKTTVAKALCHDVNAD----MMFVNGSD----CK--IDFVRG   91 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTT-CCCSEEEECSSTTSSHHHHHHHHHHHTTEE----EEEEETTT----CC--HHHHHT
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCCC----EEEEcccc----cC--HHHHHH
Confidence            34467999999999999999853 234678889999999999999999887422    22222111    11  122222


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh---hhhhhhCCCCCCCCCceEEEEeCchh-Hhh-hcC
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE---QLRGLFGKRDWFGLGSMIIITTRDEH-LLK-LHR  160 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~---~~~~l~~~~~~~~~~~~iiitsr~~~-~~~-~~~  160 (352)
                      .+........                ..+.+.+++||+++...   ....+...+.....++++|+|+.... +.+ ...
T Consensus        92 ~~~~~~~~~~----------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~s  155 (324)
T 3u61_B           92 PLTNFASAAS----------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQS  155 (324)
T ss_dssp             HHHHHHHBCC----------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHH
T ss_pred             HHHHHHhhcc----------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHh
Confidence            2222111100                12467899999998654   34444443332234667777776542 111 112


Q ss_pred             cccEEecCCCCHhHHHHHHHh-------hhcCCCCCchhHH-HHHHHHHHHcCCCchhHHHHHHhh
Q 045677          161 VEEVYKLEALNFDEAFRLFCL-------KAFDTYKPLEEYL-ELAKCFVKYASGLPLAVDVLVSFL  218 (352)
Q Consensus       161 ~~~~~~l~~l~~~e~~~ll~~-------~~~~~~~~~~~~~-~~~~~i~~~~~G~Pl~i~~~~~~l  218 (352)
                      ....+.+++++.++...++..       .+......  ..+ +.++.+++.++|++..+......+
T Consensus       156 R~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~--~~~~~~~~~l~~~~~gd~R~a~~~L~~~  219 (324)
T 3u61_B          156 RCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIA--IADMKVVAALVKKNFPDFRKTIGELDSY  219 (324)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCC--BSCHHHHHHHHHHTCSCTTHHHHHHHHH
T ss_pred             hCcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCC--CCcHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            345799999998874333222       11110111  112 667788899999888665444443

>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=98.93  E-value=3.9e-08  Score=86.49  Aligned_cols=181  Identities=14%  Similarity=0.077  Sum_probs=103.9

Q ss_pred             cHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH----
Q 045677           15 ESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL----   90 (352)
Q Consensus        15 ~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----   90 (352)
                      +...+.|...+.++ .-.+.++++|++|+|||++|..+++.+........ .        ..+. -..+..+....    
T Consensus         8 ~~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~-~--------~c~~-c~~c~~~~~~~~~d~   76 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGH-K--------SCGH-CRGCQLMQAGTHPDY   76 (334)
T ss_dssp             HHHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTT-B--------CCSC-SHHHHHHHHTCCTTE
T ss_pred             HHHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCC-C--------CCCC-CHHHHHHhcCCCCCE
Confidence            44556777777643 23567899999999999999999988643321000 0        0000 00111111100    


Q ss_pred             hcccC---CCccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh-Hhhh-
Q 045677           91 LMLAD---NSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH-LLKL-  158 (352)
Q Consensus        91 ~~~~~---~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~~-  158 (352)
                      .....   ......++.. .+.+.+     .+++-++|||+++.  ......++..+...+.++.+|++|.+.. +.+. 
T Consensus        77 ~~~~~~~~~~~~~i~~ir-~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti  155 (334)
T 1a5t_A           77 YTLAPEKGKNTLGVDAVR-EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (334)
T ss_dssp             EEECCCTTCSSBCHHHHH-HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             EEEeccccCCCCCHHHHH-HHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHH
Confidence            00000   0111122211 222222     24578999999974  3445566665555556677777665542 2222 


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ......+.+++++.++..+++.+..   .    ..++.+..+++.++|.|..+...
T Consensus       156 ~SRc~~~~~~~~~~~~~~~~L~~~~---~----~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          156 RSRCRLHYLAPPPEQYAVTWLSREV---T----MSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC---C----CCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             hhcceeeeCCCCCHHHHHHHHHHhc---C----CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3445689999999999999998875   1    12355678999999999866543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.92  E-value=6.2e-08  Score=87.11  Aligned_cols=184  Identities=14%  Similarity=0.058  Sum_probs=101.2

Q ss_pred             CcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      -..++|.+..++.|.+++..          .....+.++|+|++|+|||+||+.++......    ++..++......  
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~----~~~v~~~~l~~~--  187 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNAT----FFNISAASLTSK--  187 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCE----EEEECSCCC-----
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCc----EEEeeHHHhhcc--
Confidence            35789999999999988731          11234679999999999999999998875432    222222111110  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-------------hhhhhhhCCCC----CC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-------------EQLRGLFGKRD----WF  140 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-------------~~~~~l~~~~~----~~  140 (352)
                          ..        +      .........+.......+.+|+||+++..             .....++..+.    ..
T Consensus       188 ----~~--------g------~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          188 ----YV--------G------EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ----------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             ----cc--------c------hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence                00        0      00011111122222345679999999643             01112221111    11


Q ss_pred             CCCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch-hHHHHHH
Q 045677          141 GLGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL-AVDVLVS  216 (352)
Q Consensus       141 ~~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-~i~~~~~  216 (352)
                      .....||.||.... +...  .++...+.++..+.++...++...+......  .....+..++..+.|+.- .|..++.
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP--LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC--SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            23445555555322 1111  1344578899999999999888766332211  223567888899988654 5555544


Q ss_pred             h
Q 045677          217 F  217 (352)
Q Consensus       217 ~  217 (352)
                      .
T Consensus       328 ~  328 (389)
T 3vfd_A          328 D  328 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.91  E-value=2.5e-09  Score=85.63  Aligned_cols=50  Identities=12%  Similarity=0.199  Sum_probs=42.5

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .-..++||+.+++.+.+.+..  ...+.++|+|++|+|||++|+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~--~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSR--RTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS--SSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccchhhcchHHHHHHHHHHhC--CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            346799999999999999984  34567899999999999999999988644

>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=98.91  E-value=1.2e-07  Score=83.56  Aligned_cols=185  Identities=12%  Similarity=0.141  Sum_probs=106.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQLL   87 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (352)
                      ..++|.+..++.|...+..+  +.+.++++||+|+||||+++.++..+... +...+.-.+.   +.. .. ....+...
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~---~~~-~~-~~~ir~~i   97 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNA---SDD-RG-IDVVRNQI   97 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECT---TSC-CS-HHHHHTHH
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcC---ccc-cc-HHHHHHHH
Confidence            55789999999999998853  32338899999999999999999886432 1111111111   110 01 11111111


Q ss_pred             HHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh-Hhh-hcCccc
Q 045677           88 SDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH-LLK-LHRVEE  163 (352)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~-~~~~~~  163 (352)
                      ..+.....               ...+.+-++|+|+++.  ......++..+......+.+|+++.... +.+ ......
T Consensus        98 ~~~~~~~~---------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~  162 (340)
T 1sxj_C           98 KDFASTRQ---------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  162 (340)
T ss_dssp             HHHHHBCC---------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHhhcc---------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhce
Confidence            11110000               0123467999999953  2334444443333345666766665332 111 123345


Q ss_pred             EEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHh
Q 045677          164 VYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSF  217 (352)
Q Consensus       164 ~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~  217 (352)
                      .+.+.+++.++..+.+...+......  ..++..+.+++.++|.+.-+......
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~~--i~~~~~~~i~~~s~G~~r~~~~~l~~  214 (340)
T 1sxj_C          163 RFRFQPLPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDMRRVLNVLQS  214 (340)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCHHHHHHHTTT
T ss_pred             eEeccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            78999999999998887765221111  22366788999999998865444333

>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=98.88  E-value=1.2e-07  Score=86.51  Aligned_cols=185  Identities=18%  Similarity=0.142  Sum_probs=105.2

Q ss_pred             CcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      -..++|.+...+.|.+.+..          .....+.++|+||+|+|||+||+.++.....   ..++..+...      
T Consensus       133 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~---~~~~~v~~~~------  203 (444)
T 2zan_A          133 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSD------  203 (444)
T ss_dssp             GGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS---SEEEEECCC-------
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC---CCEEEEeHHH------
Confidence            36689999999999887631          1123467999999999999999999988621   1122221111      


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-------------hhhhhhhCCCCC---CC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-------------EQLRGLFGKRDW---FG  141 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-------------~~~~~l~~~~~~---~~  141 (352)
                          +    .....+..   ....   ...+.......+.+|+||+++..             .....++..+..   ..
T Consensus       204 ----l----~~~~~g~~---~~~~---~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  269 (444)
T 2zan_A          204 ----L----VSKWLGES---EKLV---KNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDN  269 (444)
T ss_dssp             ----------------C---CCTH---HHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCC
T ss_pred             ----H----HhhhcchH---HHHH---HHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCC
Confidence                0    01111110   1111   12222222457889999999643             123445554432   13


Q ss_pred             CCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC-chhHHHHHHh
Q 045677          142 LGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL-PLAVDVLVSF  217 (352)
Q Consensus       142 ~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Pl~i~~~~~~  217 (352)
                      .+..||.||.... +.+.  .++...+.++..+.++...++........  .......+..|++.+.|+ +..|..++..
T Consensus       270 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~--~~l~~~~l~~la~~t~G~sgadl~~l~~~  347 (444)
T 2zan_A          270 DGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQ--NSLTEADFQELGRKTDGYSGADISIIVRD  347 (444)
T ss_dssp             SSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSC--EECCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            4455665665432 1111  14445788888888888888877663221  111235678899999984 5566655544

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.86  E-value=2.4e-07  Score=80.11  Aligned_cols=184  Identities=15%  Similarity=0.093  Sum_probs=101.7

Q ss_pred             CCcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .-..++|.+..++.|.+.+..          .....+.++|+|++|+|||++|+.++......|    +..+........
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~----~~i~~~~l~~~~   94 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATF----LNISAASLTSKY   94 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEE----EEEESTTTSSSS
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe----EEeeHHHHhhcc
Confidence            336799999999999887742          112346789999999999999999998764322    122111111000


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhH-HHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCC---CC
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGV-NMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKR---DW  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~---~~  139 (352)
                                           ........ ..+.......+.+|+||+++...             ....++..+   ..
T Consensus        95 ---------------------~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  153 (297)
T 3b9p_A           95 ---------------------VGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPG  153 (297)
T ss_dssp             ---------------------CSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-
T ss_pred             ---------------------cchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccc
Confidence                                 00011111 11222223567899999995321             111222111   11


Q ss_pred             --CCCCceEEEEeCchh-Hhhh--cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch-hHHH
Q 045677          140 --FGLGSMIIITTRDEH-LLKL--HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL-AVDV  213 (352)
Q Consensus       140 --~~~~~~iiitsr~~~-~~~~--~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-~i~~  213 (352)
                        ...+..||.||.... +...  .+....+.++..+.++...++..........  .....+..+++.+.|++- .|..
T Consensus       154 ~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          154 NPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSP--LDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             -----CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCC--SCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHH
Confidence              113445665665432 1111  1344677888888888888877655221111  123567889999999886 6655


Q ss_pred             HHHh
Q 045677          214 LVSF  217 (352)
Q Consensus       214 ~~~~  217 (352)
                      ++..
T Consensus       232 l~~~  235 (297)
T 3b9p_A          232 LAKD  235 (297)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.84  E-value=3.9e-08  Score=90.47  Aligned_cols=147  Identities=14%  Similarity=0.106  Sum_probs=83.1

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      -+++|||+.+++.+.+.+...  ....++|+|++|+|||++|+.+++.+....      ...++..++.           
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-----------  245 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-----------  245 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--------------
T ss_pred             CCCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-----------
Confidence            357999999999999999853  335578999999999999999999874432      1122222111           


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhH------
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHL------  155 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~------  155 (352)
                            ....+..   ...   ....+.......+.+|++|  ...+....+...+.  ....++|.+|.....      
T Consensus       246 ------~~~~g~~---e~~---~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          246 ------TKYRGEF---EDR---LKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             ----------------CTT---HHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             ------ccccchH---HHH---HHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhc
Confidence                  0000000   011   1122222233567899999  22333333444443  234566665554431      


Q ss_pred             -hhhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          156 -LKLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       156 -~~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                       ....+....+.+++.+.++...++....
T Consensus       310 ~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             CHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence             1112234579999999999999998654

>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=98.82  E-value=5e-07  Score=79.39  Aligned_cols=256  Identities=18%  Similarity=0.152  Sum_probs=137.1

Q ss_pred             cCcccccHHHHHHHHHHhcC---CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTG---SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQ   85 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~---~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (352)
                      ..++|.+..++.+...+...   +.....++|+||+|+|||||++.++..+...+.    ... +..   .....++ ..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~----~~s-g~~---~~~~~~l-~~   95 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH----VTS-GPV---LVKQGDM-AA   95 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE----EEE-TTT---CCSHHHH-HH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE----EEe-chH---hcCHHHH-HH
Confidence            56899998888888777632   223466899999999999999999988753321    110 000   0000111 01


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCC------------------CCCce
Q 045677           86 LLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWF------------------GLGSM  145 (352)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~------------------~~~~~  145 (352)
                      +                     + ..+ .++.++++|+++..  ...+.++..+...                  -....
T Consensus        96 ~---------------------~-~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           96 I---------------------L-TSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             H---------------------H-HHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             H---------------------H-HHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeE
Confidence            0                     0 011 23347788888532  1112111100000                  01122


Q ss_pred             EE-EEeCchhHhhhc--CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcC--
Q 045677          146 II-ITTRDEHLLKLH--RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFG--  220 (352)
Q Consensus       146 ii-itsr~~~~~~~~--~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~--  220 (352)
                      ++ .|++...+....  +......+++.+.++..+++.+.......  ...++.+..|++.+.|.|..+..+...+..  
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~--~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a  230 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV--EIEDAAAEMIAKRSRGTPRIAIRLTKRVRDML  230 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC--CBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC--CcCHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Confidence            33 344433332222  23346889999999999999876532111  133467889999999999876554433211  


Q ss_pred             ----C---ChhHHHHHHHHHccCCchhHHHHHHhhhccCcHhhhhhhhhhcc-C-CCCCCHHHHHHHHHhcCCCchhchH
Q 045677          221 ----R---PVDQWRSTQERLKRDPENKILGILQISFDGLKEAEKNIFLDVAC-F-YKWENRDYVSKILDSCGFDPIIGIS  291 (352)
Q Consensus       221 ----~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~ls~-~-~~~~~~~~l~~~~~~~~~~~~~~l~  291 (352)
                          .   ..+.....++.+            ...-..++...+.++..+.- | .+++..+.++...+.+....++..+
T Consensus       231 ~~~~~~~It~~~v~~al~~~------------~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~  298 (334)
T 1in4_A          231 TVVKADRINTDIVLKTMEVL------------NIDDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYE  298 (334)
T ss_dssp             HHHTCSSBCHHHHHHHHHHH------------TCCTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTH
T ss_pred             HHcCCCCcCHHHHHHHHHHh------------CCCcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHH
Confidence                1   111112222211            11123455555555554432 3 3446777777776544323334444


Q ss_pred             -HHhhccceeecCCCceehh
Q 045677          292 -VLIEKSLLTVRENDRLWMH  310 (352)
Q Consensus       292 -~L~~~~li~~~~~~~~~~H  310 (352)
                       .|.+.|+|+....|+....
T Consensus       299 ~~l~~~g~i~~~~~gr~~~~  318 (334)
T 1in4_A          299 PYLLQAGFLARTPRGRIVTE  318 (334)
T ss_dssp             HHHHHTTSEEEETTEEEECH
T ss_pred             HHHHHcCCeecccccHHhhH
Confidence             7999999999987775433

>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=98.78  E-value=4.4e-07  Score=78.56  Aligned_cols=175  Identities=14%  Similarity=0.148  Sum_probs=99.5

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..++|.+..++.|.+++..           +-...+.++|+|++|+|||+||+.++......    .+..+.        
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~----~i~v~~--------   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKG--------   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE----EEEECH--------
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC----EEEEEh--------
Confidence            5689999999888887652           12345679999999999999999999876432    112111        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhh----------------hhhhhCCCCC--
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ----------------LRGLFGKRDW--  139 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~----------------~~~l~~~~~~--  139 (352)
                        ..+    ...+.+..      .......+.......+.+|+||+++....                ...++..+..  
T Consensus        83 --~~l----~~~~~g~~------~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~  150 (301)
T 3cf0_A           83 --PEL----LTMWFGES------EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  150 (301)
T ss_dssp             --HHH----HHHHHTTC------TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC
T ss_pred             --HHH----HhhhcCch------HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc
Confidence              111    12222111      11122233333345689999999964211                2223222211  


Q ss_pred             CCCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          140 FGLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       140 ~~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ...+..||.||.... +.+.    .+....+.++..+.++..+++............   .....++..+.|+|-+
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 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKD---VDLEFLAKMTNGFSGA  223 (301)
T ss_dssp             TTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSS---CCHHHHHHTCSSCCHH
T ss_pred             CCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCcc---chHHHHHHHcCCCCHH
Confidence            123455666665432 2111    134567899999999988888776532211111   1134566778887654

>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=98.76  E-value=3.6e-08  Score=97.50  Aligned_cols=152  Identities=12%  Similarity=0.088  Sum_probs=82.8

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      -+++|||+.+++.+.+.+...  ..+.++|+|++|+|||++|..++..+....      ...++..++......      
T Consensus       169 ld~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g------  240 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG------  240 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------
T ss_pred             CcccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhcc------
Confidence            356899999999999999843  345578999999999999999998863321      222333222111000      


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHH-HhhhC-CceEEEEEeCCCChh---------h-hhhhhCCCCCCCCCceEEEE
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMI-GSRLR-HKKVLLLIDDVADVE---------Q-LRGLFGKRDWFGLGSMIIIT  149 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~-~~~~llvlDd~~~~~---------~-~~~l~~~~~~~~~~~~iiit  149 (352)
                                  . ............+ ..... +.+.+|+||+++...         + ...+...+.  .....+|.+
T Consensus       241 ------------~-~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~a  305 (854)
T 1qvr_A          241 ------------A-KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGA  305 (854)
T ss_dssp             ------------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEE
T ss_pred             ------------C-ccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEe
Confidence                        0 0000111112222 22222 468899999996532         1 111111111  234456655


Q ss_pred             eCchhH------hhhcCcccEEecCCCCHhHHHHHHHhh
Q 045677          150 TRDEHL------LKLHRVEEVYKLEALNFDEAFRLFCLK  182 (352)
Q Consensus       150 sr~~~~------~~~~~~~~~~~l~~l~~~e~~~ll~~~  182 (352)
                      |.....      ....+....+.+++.+.++..+++...
T Consensus       306 t~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          306 TTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             ECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             cCchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            554432      111233456899999999999988744

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.75  E-value=7e-07  Score=79.17  Aligned_cols=172  Identities=16%  Similarity=0.206  Sum_probs=97.8

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC-C
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK-E   76 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~-~   76 (352)
                      +...|-+...++|.+.+.-           +-..++-++++||||+|||.||+.++......|    +.......... .
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~sk~v  223 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF----IRVSGAELVQKYI  223 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE----EEEEGGGGSCSST
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc----eEEEhHHhhcccc
Confidence            4467888888887765431           223456799999999999999999999876553    22222111111 1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC-
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW-  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~-  139 (352)
                      +.-...+                     ...+...-...+++|+||+++...                .+..++..+.. 
T Consensus       224 Gese~~v---------------------r~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  282 (405)
T 4b4t_J          224 GEGSRMV---------------------RELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGF  282 (405)
T ss_dssp             THHHHHH---------------------HHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTT
T ss_pred             chHHHHH---------------------HHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhcc
Confidence            1101111                     122223334678999999995321                12233322221 


Q ss_pred             -CCCCceEEEEeCch-----hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 -FGLGSMIIITTRDE-----HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 -~~~~~~iiitsr~~-----~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                       ...+..||.||...     .+....++...+.++.-+.++-.++|+...........   -.++.+++.|.|+-
T Consensus       283 ~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~d---vdl~~lA~~t~G~S  354 (405)
T 4b4t_J          283 ETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRG---INLRKVAEKMNGCS  354 (405)
T ss_dssp             TCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSS---CCHHHHHHHCCSCC
T ss_pred             CCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCcc---CCHHHHHHHCCCCC
Confidence             12344455555433     22223467788999988988888888766532221111   12567888888754

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.75  E-value=1.3e-08  Score=78.17  Aligned_cols=50  Identities=20%  Similarity=0.255  Sum_probs=38.3

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ..++|+...++++.+.+..-......|+|+|++|+|||++|+.+++....
T Consensus         1 ~~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~   50 (145)
T 3n70_A            1 VELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRN   50 (145)
T ss_dssp             ---CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTT
T ss_pred             CCceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCc
Confidence            36899999999999988652233356899999999999999999876533

>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=98.75  E-value=8.9e-08  Score=83.23  Aligned_cols=51  Identities=20%  Similarity=0.303  Sum_probs=40.4

Q ss_pred             CcCcccccHHHHHHHHHHhc------------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            8 PKELVGMESRLEKLKFLMCT------------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~------------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++|++..++.+...+..            .....+.++|+|++|+|||++|+.+++.+..
T Consensus        14 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   76 (310)
T 1ofh_A           14 DQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (310)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35689999999999887753            0123467889999999999999999988743

>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=98.73  E-value=1e-07  Score=87.82  Aligned_cols=180  Identities=14%  Similarity=0.118  Sum_probs=101.7

Q ss_pred             cCcccccHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCTG-----------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~-----------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..++|.+..+++|.+++...           ....+.++|+|++|+|||++|+.++......    ++..++....... 
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~----fv~vn~~~l~~~~-  278 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKL-  278 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSE----EEEEEHHHHHTSC-
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCC----EEEEEchHhhhhh-
Confidence            35899999999998877631           2345679999999999999999998876332    2222221111110 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-------------hhhhhhhCCCC--CCCC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-------------EQLRGLFGKRD--WFGL  142 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-------------~~~~~l~~~~~--~~~~  142 (352)
                                   .      ..........+.....+.+.+|+||+++..             .....++..+.  ....
T Consensus       279 -------------~------g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~  339 (489)
T 3hu3_A          279 -------------A------GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (489)
T ss_dssp             -------------T------THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTS
T ss_pred             -------------c------chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCC
Confidence                         0      000111222333344567889999999311             11222322221  1123


Q ss_pred             CceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC-chhHHHHH
Q 045677          143 GSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL-PLAVDVLV  215 (352)
Q Consensus       143 ~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Pl~i~~~~  215 (352)
                      +..||.||.... +.+.    .++...+.++..+.++-.+++...........   ...+..++..+.|+ +..|..++
T Consensus       340 ~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~---~~~l~~la~~t~g~s~~dL~~L~  415 (489)
T 3hu3_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD---DVDLEQVANETHGHVGADLAALC  415 (489)
T ss_dssp             CEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCT---TCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             ceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcc---hhhHHHHHHHccCCcHHHHHHHH
Confidence            455555665432 2111    24556789999999999999987763222111   11245677777775 44455443

>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=98.72  E-value=2.8e-07  Score=90.15  Aligned_cols=152  Identities=15%  Similarity=0.159  Sum_probs=88.7

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      +.++||+.+++.+.+.+...  ....++|+|++|+|||++|+.++..+....      ...++..+......        
T Consensus       186 d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~--------  255 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA--------  255 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C--------
T ss_pred             CCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhc--------
Confidence            56899999999999999853  345678999999999999999998763221      12222221111100        


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCCh----------hhhhh-hhCCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVADV----------EQLRG-LFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~~----------~~~~~-l~~~~~~~~~~~~iiits  150 (352)
                                . .............+...+ ...+.+|+||+++..          .+... +...+.  .....+|.+|
T Consensus       256 ----------~-~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at  322 (758)
T 1r6b_X          256 ----------G-TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  322 (758)
T ss_dssp             ----------C-CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEE
T ss_pred             ----------c-ccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEe
Confidence                      0 001112222222222222 345789999999644          12222 333333  2455666666


Q ss_pred             CchhHhh-------hcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          151 RDEHLLK-------LHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       151 r~~~~~~-------~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      .......       ..+....+.+++.+.++..+++....
T Consensus       323 ~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          323 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            5443211       12233478999999999888887543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.67  E-value=1.1e-06  Score=79.09  Aligned_cols=173  Identities=20%  Similarity=0.241  Sum_probs=97.0

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      +.+.|-+...++|.+.+.-           +-..++-|+++||+|+|||.||+.++......|    +............
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~----~~v~~s~l~sk~~  256 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF----IFSPASGIVDKYI  256 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGTCCSSS
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE----EEEehhhhccccc
Confidence            4567888888877665542           234467899999999999999999999876543    2222222211110


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC--
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW--  139 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~--  139 (352)
                      .                    .........+...-...+++|+||+++...                .+..++..+..  
T Consensus       257 G--------------------ese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          257 G--------------------ESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             S--------------------HHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             h--------------------HHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence            0                    001111122233334679999999995321                12233332211  


Q ss_pred             CCCCceEEEEeCchh-H----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 FGLGSMIIITTRDEH-L----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 ~~~~~~iiitsr~~~-~----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                      ...+..||.||.... +    ....++...+.++.-+.++-.++|+...........   -.+..+++.|.|+-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d---~dl~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGE---FDFEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSC---CCHHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcc---cCHHHHHHhCCCCC
Confidence            123455666665332 2    112235667889888888888888765532221111   12567888888764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.67  E-value=1.6e-06  Score=77.97  Aligned_cols=172  Identities=16%  Similarity=0.197  Sum_probs=97.0

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC-C
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK-E   76 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~-~   76 (352)
                      ....|-+...++|.+.+.-           +-..++-|+++||+|+|||.||+.++......|    +.......... .
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f----i~vs~s~L~sk~v  284 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF----IRVIGSELVQKYV  284 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCCCSS
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe----EEEEhHHhhcccC
Confidence            3577888888888765421           234567899999999999999999999876543    22222211111 1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC-
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW-  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~-  139 (352)
                      +.-...                     ....+.......+++|+||+++...                .+..++..+.. 
T Consensus       285 Gesek~---------------------ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  343 (467)
T 4b4t_H          285 GEGARM---------------------VRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGF  343 (467)
T ss_dssp             SHHHHH---------------------HHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSS
T ss_pred             CHHHHH---------------------HHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhcc
Confidence            110111                     1122233334678999999995321                11222222211 


Q ss_pred             -CCCCceEEEEeCchh-----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 -FGLGSMIIITTRDEH-----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 -~~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                       ...+..+|.||....     +....++...+.++.-+.++-.++|+...........   -.++.+++.|.|+-
T Consensus       344 ~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~d---vdl~~LA~~T~GfS  415 (467)
T 4b4t_H          344 DPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERG---IRWELISRLCPNST  415 (467)
T ss_dssp             CCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSS---CCHHHHHHHCCSCC
T ss_pred             CCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCC---CCHHHHHHHCCCCC
Confidence             123444555554322     2222357788999888888888888766532211111   12566888888764

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.66  E-value=2.4e-07  Score=80.18  Aligned_cols=49  Identities=20%  Similarity=0.258  Sum_probs=39.8

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|+...++++.+.+..-......|+|+|++|+|||++|+.+.....
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~   50 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA   50 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc
Confidence            4689999999999988875323345688999999999999999988654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.66  E-value=1.9e-07  Score=91.27  Aligned_cols=147  Identities=14%  Similarity=0.092  Sum_probs=83.7

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC------cceeEeeeccccccCCCcHHH
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF------DGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      -+.+|||+.+++.+...+...  ...-++++|++|+|||++|+.+++.+....      ...++..+.            
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~------------  244 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM------------  244 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--------------
T ss_pred             CCCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc------------
Confidence            357999999999999999853  334588999999999999999998863321      112222111            


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCchhH------
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHL------  155 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~~~------  155 (352)
                           .....+   ...   ..+...+.......+.+|+||  ...+....+...+.  ....++|.+|.....      
T Consensus       245 -----g~~~~G---~~e---~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~  309 (758)
T 3pxi_A          245 -----GTKYRG---EFE---DRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (758)
T ss_dssp             ----------------C---TTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             -----cccccc---hHH---HHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhc
Confidence                 000000   000   111222233334677899999  22233333444443  335566666654431      


Q ss_pred             h-hhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          156 L-KLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       156 ~-~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      . ...+....+.+++.+.++..+++....
T Consensus       310 d~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             cHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            1 111233679999999999999998554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.64  E-value=7.5e-07  Score=75.20  Aligned_cols=183  Identities=14%  Similarity=0.093  Sum_probs=96.5

Q ss_pred             CCcCcccccHHHHHHHHHHhc---C-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT---G-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~---~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .-..++|.+...+++.+.+..   .       ....+-++|+|++|+|||+||+.++......+   +.+ +........
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~i-~~~~~~~~~   85 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTI-SGSDFVEMF   85 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEE-CSCSSTTSC
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE---EEE-eHHHHHHHh
Confidence            346789999888877665431   0       11234588999999999999999998764332   222 111111000


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------------hhhhhhhCCCCC-
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------------EQLRGLFGKRDW-  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------------~~~~~l~~~~~~-  139 (352)
                                        .  ..........+.......+.++++|+++..                ..+..++..+.. 
T Consensus        86 ------------------~--~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  145 (257)
T 1lv7_A           86 ------------------V--GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF  145 (257)
T ss_dssp             ------------------C--CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTC
T ss_pred             ------------------h--hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCc
Confidence                              0  001111222233333456789999998321                112222222111 


Q ss_pred             -CCCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCC-CchhHH
Q 045677          140 -FGLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASG-LPLAVD  212 (352)
Q Consensus       140 -~~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Pl~i~  212 (352)
                       ...+..+|.||.... +.+.    .++...+.++..+.++-.+++............   .....++..+.| ++.-|.
T Consensus       146 ~~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~---~~~~~la~~~~G~~~~dl~  222 (257)
T 1lv7_A          146 EGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFSGADLA  222 (257)
T ss_dssp             CSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHH
T ss_pred             ccCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHcCCCCHHHHH
Confidence             123445666665432 2111    134457888888888888887765522211111   123456677777 776665


Q ss_pred             HHHH
Q 045677          213 VLVS  216 (352)
Q Consensus       213 ~~~~  216 (352)
                      .++.
T Consensus       223 ~l~~  226 (257)
T 1lv7_A          223 NLVN  226 (257)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5433

>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=98.61  E-value=3.5e-07  Score=78.99  Aligned_cols=146  Identities=14%  Similarity=0.044  Sum_probs=88.4

Q ss_pred             cccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc---CCCcceeEeeeccccccCCCcHHHHHHHHHHH
Q 045677           13 GMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS---HEFDGSSFLADVRERCDKEGSVISLQKQLLSD   89 (352)
Q Consensus        13 GR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (352)
                      |-+..++.|...+..+.  .+..+++||+|+|||++|..+++...   ........+. .   ...... .+..+.+...
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~-~---~~~~~~-id~ir~li~~   73 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID-P---EGENIG-IDDIRTIKDF   73 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC-C---SSSCBC-HHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc-C---CcCCCC-HHHHHHHHHH
Confidence            44566788888888543  68899999999999999999987521   1112222221 1   100111 2222333333


Q ss_pred             HhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hHhhhcCcccEEe
Q 045677           90 LLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKLHRVEEVYK  166 (352)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~~~~~~~~~  166 (352)
                      +...+.                 .+++-++|||+++.  ....+.++..+...+..+.+|++|.+. .+.+..... .++
T Consensus        74 ~~~~p~-----------------~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           74 LNYSPE-----------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HTSCCS-----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             Hhhccc-----------------cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            221111                 23466999999964  345566666665556677777766433 344444444 999


Q ss_pred             cCCCCHhHHHHHHHhhh
Q 045677          167 LEALNFDEAFRLFCLKA  183 (352)
Q Consensus       167 l~~l~~~e~~~ll~~~~  183 (352)
                      +++++.++..+++.+..
T Consensus       136 f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          136 VVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             EECCCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998876

>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=98.61  E-value=1.1e-06  Score=80.39  Aligned_cols=179  Identities=18%  Similarity=0.212  Sum_probs=99.2

Q ss_pred             cCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ..++|.+..++++.+.+..          +...++-++|+||+|+|||+||+.++......|    +..+..........
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f----~~is~~~~~~~~~g   91 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF----FHISGSDFVELFVG   91 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCE----EEEEGGGTTTCCTT
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCe----eeCCHHHHHHHHhc
Confidence            4689999888777765432          011234588999999999999999998765332    22222111111000


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------------hhhhhhhCCCCC--C
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------------EQLRGLFGKRDW--F  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------------~~~~~l~~~~~~--~  140 (352)
                                          .........+.......+.+|+||+++..                ..+..++..+..  .
T Consensus        92 --------------------~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~  151 (476)
T 2ce7_A           92 --------------------VGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS  151 (476)
T ss_dssp             --------------------HHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG
T ss_pred             --------------------ccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC
Confidence                                00111222334444567899999999532                112333322211  1


Q ss_pred             CCCceEEEEeCchhHhh-h----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhHHHH
Q 045677          141 GLGSMIIITTRDEHLLK-L----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAVDVL  214 (352)
Q Consensus       141 ~~~~~iiitsr~~~~~~-~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i~~~  214 (352)
                      ..+..||.||....... .    .++...+.++..+.++-.+++............   .....++..+.|+. .-|..+
T Consensus       152 ~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~---v~l~~la~~t~G~sgadL~~l  228 (476)
T 2ce7_A          152 KEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAED---VNLEIIAKRTPGFVGADLENL  228 (476)
T ss_dssp             GGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcch---hhHHHHHHhcCCCcHHHHHHH
Confidence            23455666665443211 1    245558889988888888888765532221111   11456888899988 345443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.61  E-value=1.1e-06  Score=78.93  Aligned_cols=172  Identities=18%  Similarity=0.218  Sum_probs=91.7

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC-C
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK-E   76 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~-~   76 (352)
                      .+..|-+...+.|.+.+.-           +-..++-++++||+|+|||.||+.++......|    +.......... .
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~----~~v~~~~l~~~~~  247 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF----IRVNGSEFVHKYL  247 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE----EEEEGGGTCCSSC
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe----EEEecchhhcccc
Confidence            4567888888887765541           234457799999999999999999999876543    22222221111 1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC-
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW-  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~-  139 (352)
                      +.-...+                     ...+.......+++++||+++...                .+..++..+.. 
T Consensus       248 Ge~e~~i---------------------r~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~  306 (428)
T 4b4t_K          248 GEGPRMV---------------------RDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGF  306 (428)
T ss_dssp             SHHHHHH---------------------HHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHS
T ss_pred             chhHHHH---------------------HHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCC
Confidence            1101111                     122223334678999999994210                12233322211 


Q ss_pred             -CCCCceEEEEeCchh-----HhhhcCcccEEecCCCCHh-HHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          140 -FGLGSMIIITTRDEH-----LLKLHRVEEVYKLEALNFD-EAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       140 -~~~~~~iiitsr~~~-----~~~~~~~~~~~~l~~l~~~-e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                       ...+..||.||....     +....++...+.++.++.. +-..++............   -.++.+++.|.|+-
T Consensus       307 ~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~---~dl~~lA~~t~G~s  379 (428)
T 4b4t_K          307 DQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPE---ADLDSLIIRNDSLS  379 (428)
T ss_dssp             CSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTT---CCHHHHHHHTTTCC
T ss_pred             CCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcc---cCHHHHHHHCCCCC
Confidence             123445665665332     2222355567888767544 445555444322111111   12567788887753

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.60  E-value=4.8e-07  Score=78.69  Aligned_cols=52  Identities=19%  Similarity=0.302  Sum_probs=41.2

Q ss_pred             CcCcccccHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            8 PKELVGMESRLEKLKFLMCTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++|.+..++.+...+...       ......++|+|++|+|||++|+.++..+...
T Consensus        16 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~   74 (311)
T 4fcw_A           16 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT   74 (311)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC
T ss_pred             hhhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC
Confidence            356899999999998877742       1123578999999999999999999887544

>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=98.59  E-value=7e-08  Score=82.15  Aligned_cols=176  Identities=16%  Similarity=0.198  Sum_probs=93.4

Q ss_pred             CCcCcccccHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .-..++|.+..++.+.+.+..          .....+.++|+|++|+|||+||+.++......+-    ..+....... 
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~----~v~~~~~~~~-   83 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFF----SMGGSSFIEM-   83 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCC----CCCSCTTTTS-
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEE----EechHHHHHh-
Confidence            346799999999888876651          1122344889999999999999999988654321    1111111000 


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-----------------hhhhhhCCCCC
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-----------------QLRGLFGKRDW  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-----------------~~~~l~~~~~~  139 (352)
                                   +....   .......   +.......+.+|+||+++...                 .+..++..+..
T Consensus        84 -------------~~~~~---~~~~~~~---~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~  144 (268)
T 2r62_A           84 -------------FVGLG---ASRVRDL---FETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDG  144 (268)
T ss_dssp             -------------CSSSC---SSSSSTT---HHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTC
T ss_pred             -------------hcchH---HHHHHHH---HHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhC
Confidence                         00000   1111111   222223456799999995431                 12333333322


Q ss_pred             C---CCCceEEEEeCchhH-----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          140 F---GLGSMIIITTRDEHL-----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       140 ~---~~~~~iiitsr~~~~-----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      .   .....+|.||.....     ....++...+.++..+.++..+++............   .....+++.+.|+|-
T Consensus       145 ~~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~---~~~~~la~~~~g~~g  219 (268)
T 2r62_A          145 FGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLAND---VNLQEVAKLTAGLAG  219 (268)
T ss_dssp             SSCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSS---CCTTTTTSSSCSSCH
T ss_pred             cccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCc---cCHHHHHHHcCCCCH
Confidence            1   122445556654321     111234456888899999988888766532211110   113345556666654

>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=98.56  E-value=3.7e-06  Score=77.13  Aligned_cols=95  Identities=13%  Similarity=0.030  Sum_probs=58.3

Q ss_pred             EEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEe---------Cc-----hhHh-hhcCcccEEecCCCCHhHHHHHH
Q 045677          117 VLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITT---------RD-----EHLL-KLHRVEEVYKLEALNFDEAFRLF  179 (352)
Q Consensus       117 ~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiits---------r~-----~~~~-~~~~~~~~~~l~~l~~~e~~~ll  179 (352)
                      -+++||+++  +.+....++..+...... .+|+.+         .+     ..+. ........+.+++++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            499999996  445677777666654445 344343         11     1111 12234456799999999999999


Q ss_pred             HhhhcCCCCCchhHHHHHHHHHHHc-CCCchhHHHH
Q 045677          180 CLKAFDTYKPLEEYLELAKCFVKYA-SGLPLAVDVL  214 (352)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~i~~~~-~G~Pl~i~~~  214 (352)
                      ..++.....  ...++.+..++..+ +|.|.....+
T Consensus       376 ~~~~~~~~~--~~~~~~~~~i~~~a~~g~~r~a~~l  409 (456)
T 2c9o_A          376 KIRAQTEGI--NISEEALNHLGEIGTKTTLRYSVQL  409 (456)
T ss_dssp             HHHHHHHTC--CBCHHHHHHHHHHHHHSCHHHHHHT
T ss_pred             HHHHHHhCC--CCCHHHHHHHHHHccCCCHHHHHHH
Confidence            876521111  12235677788888 7888755443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=1.9e-06  Score=77.56  Aligned_cols=172  Identities=15%  Similarity=0.186  Sum_probs=95.0

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC-C
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK-E   76 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~-~   76 (352)
                      ..+.|-+...++|.+.+..           +-..++-|++|||||+|||.||+.++......|    +.......... .
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~~~~v  256 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATF----LKLAAPQLVQMYI  256 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCSSCS
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCE----EEEehhhhhhccc
Confidence            4578888888888765321           223467899999999999999999998876543    22222222111 1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh-------h---------hhhhhhCCCCCC
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV-------E---------QLRGLFGKRDWF  140 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~-------~---------~~~~l~~~~~~~  140 (352)
                      +.-...++                     ..+.......+++|+||+++..       .         .+..++..+...
T Consensus       257 Gese~~ir---------------------~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~  315 (434)
T 4b4t_M          257 GEGAKLVR---------------------DAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF  315 (434)
T ss_dssp             SHHHHHHH---------------------HHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTS
T ss_pred             chHHHHHH---------------------HHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhcc
Confidence            11011111                     1122222457899999999421       0         122333333211


Q ss_pred             --CCCceEEEEeCchh-Hhh----hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          141 --GLGSMIIITTRDEH-LLK----LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       141 --~~~~~iiitsr~~~-~~~----~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                        ..+..||.||.... +.+    ..++...+.++.-+.++..++|+...........   -.++.+++.|.|+-
T Consensus       316 ~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d---vdl~~lA~~t~G~s  387 (434)
T 4b4t_M          316 SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDD---INWQELARSTDEFN  387 (434)
T ss_dssp             CSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSC---CCHHHHHHHCSSCC
T ss_pred             CCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCc---CCHHHHHHhCCCCC
Confidence              23444555554332 212    2356678899888888888888755422111110   11566788887753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=2.6e-06  Score=75.85  Aligned_cols=172  Identities=17%  Similarity=0.211  Sum_probs=94.2

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC-C
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK-E   76 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~-~   76 (352)
                      ..+.|-+...++|.+.+.-           +-..++-|+++||+|+|||.||+.++......|    +.......... .
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f----i~v~~s~l~sk~v  257 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF----LRIVGSELIQKYL  257 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE----EEEESGGGCCSSS
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE----EEEEHHHhhhccC
Confidence            4466788877777665431           223457799999999999999999999876553    22222111111 1


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCC--
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRD--  138 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~--  138 (352)
                      +.-...++                     ..+...-...+++|+||+++...                .+..++..+.  
T Consensus       258 Gesek~ir---------------------~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~  316 (437)
T 4b4t_I          258 GDGPRLCR---------------------QIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF  316 (437)
T ss_dssp             SHHHHHHH---------------------HHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC
T ss_pred             chHHHHHH---------------------HHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc
Confidence            11011111                     12222334678999999985310                1222222221  


Q ss_pred             CCCCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          139 WFGLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       139 ~~~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                      ....+..||.||.... +.+.    .++...+.++.-+.++-.++|+...........   -.++.+++.|.|+-
T Consensus       317 ~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~d---vdl~~LA~~T~GfS  388 (437)
T 4b4t_I          317 DDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSED---VNLETLVTTKDDLS  388 (437)
T ss_dssp             CCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSC---CCHHHHHHHCCSCC
T ss_pred             CCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCc---CCHHHHHHhCCCCC
Confidence            1123445555554332 2222    245567888888888888888766532211110   12567788887753

>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=98.55  E-value=4.1e-07  Score=77.22  Aligned_cols=50  Identities=20%  Similarity=0.159  Sum_probs=36.9

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +.++|++..++.+.+.+.........++|+|++|+|||++|+.+++....
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~   55 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSR   55 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTT
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCc
Confidence            45899999999988776642223367889999999999999999987643

>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=98.51  E-value=2.4e-07  Score=73.74  Aligned_cols=49  Identities=16%  Similarity=0.214  Sum_probs=34.1

Q ss_pred             cCccc----ccHHHHHHHHHHhcC-CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVG----MESRLEKLKFLMCTG-SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vG----R~~~l~~l~~~l~~~-~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|++    +...++.+.+++.+- ......+.|+|++|+|||||++.++..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           10 DTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             SSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             ccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34554    344445555555531 12347899999999999999999998875

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.42  E-value=4.1e-08  Score=75.05  Aligned_cols=50  Identities=12%  Similarity=0.099  Sum_probs=35.3

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|++..++++.+.+..-......|+|+|++|+|||++|+.++....
T Consensus         3 ~~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A            3 AFDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             -----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             CcCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            34689999999999888764212234588999999999999998876543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.39  E-value=2.8e-07  Score=70.78  Aligned_cols=51  Identities=20%  Similarity=0.219  Sum_probs=34.3

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .....+.++|.+.+.-   ..+..-  ....+.|+|++|+|||+|++.++......
T Consensus        13 ~~~~~~f~~g~n~~~~---~~l~~~--~g~~~~l~G~~G~GKTtL~~~i~~~~~~~   63 (149)
T 2kjq_A           13 YPSFDKFLGTENAELV---YVLRHK--HGQFIYVWGEEGAGKSHLLQAWVAQALEA   63 (149)
T ss_dssp             CCCCCCCCSCCTHHHH---HHCCCC--CCSEEEEESSSTTTTCHHHHHHHHHHHTT
T ss_pred             ccchhhcCcCccHHHH---HHHHhc--CCCEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3344455566654443   333322  34678899999999999999999887543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.37  E-value=4.2e-06  Score=71.96  Aligned_cols=29  Identities=31%  Similarity=0.539  Sum_probs=25.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .++.++++||+|+|||+||+.+++.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~   63 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGIN   63 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35678999999999999999999988544

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.36  E-value=1.4e-06  Score=70.61  Aligned_cols=58  Identities=12%  Similarity=0.125  Sum_probs=39.3

Q ss_pred             cCcccccH----HHHHHHHHHhcCCCC--eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677            9 KELVGMES----RLEKLKFLMCTGSND--VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus         9 ~~~vGR~~----~l~~l~~~l~~~~~~--~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ++|++...    .++.+.+++......  .+.++|+|++|+|||+||..++..........+++
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~   88 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIV   88 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            45776553    344555666543221  26789999999999999999999876554444444

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.36  E-value=2.2e-06  Score=83.83  Aligned_cols=150  Identities=15%  Similarity=0.212  Sum_probs=84.2

Q ss_pred             cCcccccHHHHHHHHHHhcCC-------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGS-------NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~-------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      ..++|.+..++.+...+....       .....++++|++|+|||++|+.+++.+.......+.+ ++......... . 
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i-~~s~~~~~~~~-~-  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRI-DMSEYMEKHST-S-  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEE-EGGGGCSSCCC-C-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEE-echhccccccc-c-
Confidence            468999999988888777411       1123699999999999999999998874432223333 33333322211 0 


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCC-----------CCCCceEEE
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDW-----------FGLGSMIII  148 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~-----------~~~~~~iii  148 (352)
                                         ...+...+.   .....+|+||+++..  +....++..+..           ...++.||+
T Consensus       568 -------------------~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~  625 (758)
T 3pxi_A          568 -------------------GGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIM  625 (758)
T ss_dssp             ----------------------CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEE
T ss_pred             -------------------cchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEE
Confidence                               001111111   123349999999632  223333222211           123567888


Q ss_pred             EeCch-----h--------H-hhh-cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          149 TTRDE-----H--------L-LKL-HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       149 tsr~~-----~--------~-~~~-~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ||...     .        . ... .+....+.+++++.++...++....
T Consensus       626 ttn~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          626 TSNVGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             EESSSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             eCCCChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            88621     0        0 001 2334689999999999888876654

>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=98.28  E-value=4.1e-06  Score=80.99  Aligned_cols=175  Identities=15%  Similarity=0.134  Sum_probs=97.9

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..+.|-+..+++|.+.+.-           +-..++-|+++||+|+|||+||+.++.....+    ++..+........ 
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~----~~~v~~~~l~sk~-  278 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKL-  278 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE----EEEEEHHHHHSSC-
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe----EEEEEhHHhhccc-
Confidence            3467888888888775431           12345779999999999999999999876543    2332221111100 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCCCCC--CC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRDWF--GL  142 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~~~--~~  142 (352)
                                         .......+...+.......+.+|+||+++...             .+..++..+...  ..
T Consensus       279 -------------------~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~  339 (806)
T 3cf2_A          279 -------------------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (806)
T ss_dssp             -------------------TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGG
T ss_pred             -------------------chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccC
Confidence                               01111222233444446789999999995321             122333222111  12


Q ss_pred             CceEEEEeCch-hHhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          143 GSMIIITTRDE-HLLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       143 ~~~iiitsr~~-~~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      +..||.+|... .+.+.    .++...+.++.-+.++-.++++..........   .-.+..++..|.|+.-+
T Consensus       340 ~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~---dvdl~~lA~~T~Gfsga  409 (806)
T 3cf2_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD---DVDLEQVANETHGHVGA  409 (806)
T ss_dssp             CEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECT---TCCHHHHHHHCCSCCHH
T ss_pred             CEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCc---ccCHHHHHHhcCCCCHH
Confidence            33444444432 22222    24667899999899888888876652221111   12256788888887543

>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=98.26  E-value=4.2e-05  Score=64.24  Aligned_cols=174  Identities=18%  Similarity=0.155  Sum_probs=87.6

Q ss_pred             CcCcccccHHHHHHHHHHhc--C--------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            8 PKELVGMESRLEKLKFLMCT--G--------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~--~--------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      -+.++|.+....++.+....  .        -.-.+-++|+|++|+|||||++.++......   .+.+. ........ 
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~---~i~~~-~~~~~~~~-   89 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GSDFVEMF-   89 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEE-HHHHHHSC-
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC---EEEee-HHHHHHHH-
Confidence            35689988777666554331  0        0112238999999999999999999876522   22221 11100000 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCCC-
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDWF-  140 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~-  140 (352)
                                   .      ..........+.......+.++++|+++...                .+..++..+... 
T Consensus        90 -------------~------~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~  150 (254)
T 1ixz_A           90 -------------V------GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  150 (254)
T ss_dssp             -------------T------THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             -------------h------hHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCC
Confidence                         0      0000111112222223457899999984211                122222222111 


Q ss_pred             CCC-ceEEEEeCchhHhh-----hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc
Q 045677          141 GLG-SMIIITTRDEHLLK-----LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP  208 (352)
Q Consensus       141 ~~~-~~iiitsr~~~~~~-----~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  208 (352)
                      ... ..++.++.......     ..++...+.++..+.++-.++++..........   ......++..+.|+-
T Consensus       151 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~---~~~~~~la~~~~G~~  221 (254)
T 1ixz_A          151 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE---DVDLALLAKRTPGFV  221 (254)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCT---TCCHHHHHHTCTTCC
T ss_pred             CCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCc---ccCHHHHHHHcCCCC
Confidence            122 23444454433221     124556789999999888888876552221111   112445777777765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.25  E-value=1.7e-05  Score=72.96  Aligned_cols=180  Identities=19%  Similarity=0.192  Sum_probs=94.9

Q ss_pred             CCcCcccccHHHHHHHHHHhc---C-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT---G-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKE   76 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~---~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (352)
                      .-..++|.+....++.+....   .       ..-.+-++|+|++|+|||+||+.++......    ++..+........
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~----~i~i~g~~~~~~~  104 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP----FITASGSDFVEMF  104 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCC----EEEEEGGGGTSSC
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC----EEEEehhHHHHhh
Confidence            346689999887777665432   1       0112348999999999999999999876522    2222222211110


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCCh----------------hhhhhhhCCCCC
Q 045677           77 GSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVADV----------------EQLRGLFGKRDW  139 (352)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~~----------------~~~~~l~~~~~~  139 (352)
                      .   ...                  ......+.+.. ...+.++++|+++..                ..+..++..+..
T Consensus       105 ~---g~~------------------~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg  163 (499)
T 2dhr_A          105 V---GVG------------------AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG  163 (499)
T ss_dssp             T---THH------------------HHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGG
T ss_pred             h---hhH------------------HHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcc
Confidence            0   000                  00011111111 235679999999421                112333322221


Q ss_pred             C--CCCceEEEEeCchhHhh-----hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hhH
Q 045677          140 F--GLGSMIIITTRDEHLLK-----LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LAV  211 (352)
Q Consensus       140 ~--~~~~~iiitsr~~~~~~-----~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~i  211 (352)
                      .  .....++.+|.......     ..++...+.++..+.++-.+++............   .....++..+.|+. .-|
T Consensus       164 ~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~d---v~l~~lA~~t~G~~gadL  240 (499)
T 2dhr_A          164 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVGADL  240 (499)
T ss_dssp             CCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCS---STTHHHHTTSCSCCHHHH
T ss_pred             cccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChH---HHHHHHHHhcCCCCHHHH
Confidence            1  12334444554443211     1235568899999999888888766532211111   22556888888887 444


Q ss_pred             HHH
Q 045677          212 DVL  214 (352)
Q Consensus       212 ~~~  214 (352)
                      ..+
T Consensus       241 ~~l  243 (499)
T 2dhr_A          241 ENL  243 (499)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.21  E-value=3.2e-05  Score=65.93  Aligned_cols=182  Identities=17%  Similarity=0.157  Sum_probs=92.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcC-C---------CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecccccc
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTG-S---------NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCD   74 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~-~---------~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~   74 (352)
                      ...-+.++|.+...+++.+....- .         .-.+-++|+|++|+|||||++.++......   .+.+. ......
T Consensus        36 ~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~---~i~~~-~~~~~~  111 (278)
T 1iy2_A           36 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GSDFVE  111 (278)
T ss_dssp             CCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEE-HHHHHH
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCC---EEEec-HHHHHH
Confidence            334467899988777776544320 0         112238999999999999999999876522   22221 111100


Q ss_pred             CCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh----------------hhhhhhhCCCC
Q 045677           75 KEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV----------------EQLRGLFGKRD  138 (352)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~----------------~~~~~l~~~~~  138 (352)
                      ..              ..      .........+.......+.++++|+++..                ..+..++..+.
T Consensus       112 ~~--------------~~------~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~ls  171 (278)
T 1iy2_A          112 MF--------------VG------VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  171 (278)
T ss_dssp             ST--------------TT------HHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHT
T ss_pred             HH--------------hh------HHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHh
Confidence            00              00      00011111222222345789999998421                11222322222


Q ss_pred             CC-CC-CceEEEEeCchhH-----hhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCc-hh
Q 045677          139 WF-GL-GSMIIITTRDEHL-----LKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLP-LA  210 (352)
Q Consensus       139 ~~-~~-~~~iiitsr~~~~-----~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-l~  210 (352)
                      .. .. ...++.++.....     ....++...+.++..+.++-.+++............   .....++..+.|+. .-
T Consensus       172 gg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~---~~~~~la~~~~G~~~~d  248 (278)
T 1iy2_A          172 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVGAD  248 (278)
T ss_dssp             TCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHH
T ss_pred             CCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcc---cCHHHHHHHcCCCCHHH
Confidence            11 12 2233344443322     222245668899999999888888765522211111   12445777777765 33


Q ss_pred             HHH
Q 045677          211 VDV  213 (352)
Q Consensus       211 i~~  213 (352)
                      |..
T Consensus       249 l~~  251 (278)
T 1iy2_A          249 LEN  251 (278)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.17  E-value=7.6e-06  Score=73.12  Aligned_cols=49  Identities=18%  Similarity=0.216  Sum_probs=37.7

Q ss_pred             cCcccccHHHHHHHHHHh----c------------------------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMC----T------------------------GSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~----~------------------------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|.+...+.|...+.    .                        .......++++|++|+|||++|+.+++.+.
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            457999988888887662    0                        011235689999999999999999998874

>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=98.06  E-value=2.4e-05  Score=76.54  Aligned_cols=50  Identities=18%  Similarity=0.217  Sum_probs=38.9

Q ss_pred             CcCcccccHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            8 PKELVGMESRLEKLKFLMCTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|.+..++.+...+...       +.....++++|++|+|||++|+.++..+.
T Consensus       457 ~~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          457 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             HhhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            346889999998887766631       11234789999999999999999998873

>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=98.00  E-value=5.8e-05  Score=70.57  Aligned_cols=49  Identities=22%  Similarity=0.291  Sum_probs=35.0

Q ss_pred             cccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           11 LVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+|-+...+.+.+.+.-    .......++|+||+|+|||+||+.++..+...
T Consensus        83 i~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~  135 (543)
T 3m6a_A           83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK  135 (543)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE
T ss_pred             hccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            57777666666443321    12245689999999999999999999887543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.97  E-value=2.1e-05  Score=72.40  Aligned_cols=47  Identities=17%  Similarity=0.205  Sum_probs=39.5

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++|++..++.+...+..+    ..++|+|++|+|||+||+.++.....
T Consensus        21 ~~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           21 EKGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             HTTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             HhhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHHhh
Confidence            367899999999888877743    46889999999999999999987643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.95  E-value=0.00024  Score=60.22  Aligned_cols=150  Identities=14%  Similarity=0.111  Sum_probs=75.9

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ..+.|-+...+.|.+.+..           .-...+-++|+||+|+|||+|++.++......   .+.+. ........ 
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~---~i~i~-g~~l~~~~-   84 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLN---FISVK-GPELLNMY-   84 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCE---EEEEE-TTTTCSST-
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCC---EEEEE-cHHHHhhh-
Confidence            4466666666666654321           00112238999999999999999999875432   22222 11111100 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHH-HhhhCCceEEEEEeCCCChh-------------hhhhhhCCCCC--CC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMI-GSRLRHKKVLLLIDDVADVE-------------QLRGLFGKRDW--FG  141 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~~~--~~  141 (352)
                      . ...                   ...+..+ .......+.++++|+++...             ....++..+..  ..
T Consensus        85 ~-~~~-------------------~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~  144 (274)
T 2x8a_A           85 V-GES-------------------ERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEAR  144 (274)
T ss_dssp             T-HHH-------------------HHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCST
T ss_pred             h-hHH-------------------HHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhccccc
Confidence            0 010                   0111111 11123467899999995421             01111111110  11


Q ss_pred             CCceEEEEeCchhHh-----hhcCcccEEecCCCCHhHHHHHHHhhh
Q 045677          142 LGSMIIITTRDEHLL-----KLHRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       142 ~~~~iiitsr~~~~~-----~~~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ....++.++......     ...++...+.++.-+.++-.++++...
T Consensus       145 ~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~  191 (274)
T 2x8a_A          145 QQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT  191 (274)
T ss_dssp             TCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHT
T ss_pred             CCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHH
Confidence            233344455444322     122566788999999998888887655

>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=97.88  E-value=0.00015  Score=71.77  Aligned_cols=51  Identities=20%  Similarity=0.315  Sum_probs=39.7

Q ss_pred             cCcccccHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            9 KELVGMESRLEKLKFLMCTG-------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~-------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|.+..++.+...+...       +.....++|+|++|+|||++|+.++..+...
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~  615 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT  615 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            35799999999988877641       1122578999999999999999999887443

>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=97.70  E-value=0.0018  Score=56.85  Aligned_cols=157  Identities=11%  Similarity=-0.007  Sum_probs=96.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc-CCCcc-eeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS-HEFDG-SSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMI  108 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (352)
                      -.++.+++|+.|.||++.+..+...+. ..+.. ..+..+     . ...+..+...+...                   
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-----~-~~~~~~l~~~~~~~-------------------   71 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID-----P-NTDWNAIFSLCQAM-------------------   71 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC-----T-TCCHHHHHHHHHHH-------------------
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec-----C-CCCHHHHHHHhcCc-------------------
Confidence            457899999999999999999988753 22321 111111     1 12223333222110                   


Q ss_pred             HhhhCCceEEEEEeCCCC---hhhhhhhhCCCCCCCCCceEEEEeCc-------hhHhhh-cCcccEEecCCCCHhHHHH
Q 045677          109 GSRLRHKKVLLLIDDVAD---VEQLRGLFGKRDWFGLGSMIIITTRD-------EHLLKL-HRVEEVYKLEALNFDEAFR  177 (352)
Q Consensus       109 ~~~l~~~~~llvlDd~~~---~~~~~~l~~~~~~~~~~~~iiitsr~-------~~~~~~-~~~~~~~~l~~l~~~e~~~  177 (352)
                        -+-+.+-++|+|+++.   ....+.+...+...+.++.+|+++..       ..+... ......++..+++.++...
T Consensus        72 --plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~  149 (343)
T 1jr3_D           72 --SLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPR  149 (343)
T ss_dssp             --HHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHH
T ss_pred             --CCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHH
Confidence              0124566889999865   34456666555544567777766532       123332 3455789999999999998


Q ss_pred             HHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHH
Q 045677          178 LFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVS  216 (352)
Q Consensus       178 ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~  216 (352)
                      ++.+.+.....  ...++.++.+++.++|+...+.....
T Consensus       150 ~l~~~~~~~g~--~i~~~a~~~l~~~~~gdl~~~~~ele  186 (343)
T 1jr3_D          150 WVAARAKQLNL--ELDDAANQVLCYCYEGNLLALAQALE  186 (343)
T ss_dssp             HHHHHHHHTTC--EECHHHHHHHHHSSTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCC--CCCHHHHHHHHHHhchHHHHHHHHHH
Confidence            88877632221  23347788999999999988865433

>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=97.68  E-value=0.00023  Score=58.03  Aligned_cols=24  Identities=29%  Similarity=0.091  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...++.|.|++|+|||||+..++.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999987

>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=97.57  E-value=5e-05  Score=60.27  Aligned_cols=120  Identities=14%  Similarity=-0.008  Sum_probs=58.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH---hcccCCCc-------cch
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL---LMLADNSI-------RNV  101 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~~-------~~~  101 (352)
                      ...|.|++..|.||||.|.-++.+...+...+.++...... ...+. ..++..+.-.+   ........       ...
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~~~gE-~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-WPNGE-RNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-SCCHH-HHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-CCccH-HHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            35677788888999999988887755443334444222110 11111 22222220000   00000000       111


Q ss_pred             hhhHHHHHhhhC-CceEEEEEeCCC-----ChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          102 YDGVNMIGSRLR-HKKVLLLIDDVA-----DVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       102 ~~~~~~~~~~l~-~~~~llvlDd~~-----~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ........+.+. ++-=|||||++.     ..-..++++..+........+|+|+|..
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            222333444443 345599999982     2222333333333335678899999975

>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=97.57  E-value=0.00019  Score=63.01  Aligned_cols=49  Identities=22%  Similarity=0.194  Sum_probs=33.8

Q ss_pred             HHHHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           19 EKLKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        19 ~~l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..|-..|. .+=....++.|+|++|+|||||+.+++..........+|+.
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId   96 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID   96 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            34444454 22234579999999999999999999988655444445553

>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=97.56  E-value=9e-05  Score=71.77  Aligned_cols=172  Identities=15%  Similarity=0.230  Sum_probs=77.3

Q ss_pred             cCcccccHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCC
Q 045677            9 KELVGMESRLEKLKFLMCT-----------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEG   77 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-----------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (352)
                      ....|-+...++|.+.+.-           +....+-++++||+|+|||.+|+.++......|    +....        
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f----~~v~~--------  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF----ISIKG--------  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEE----EECCH--------
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCce----EEecc--------
Confidence            3456666666676665432           112345689999999999999999998865432    21111        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCCCC
Q 045677           78 SVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDWFG  141 (352)
Q Consensus        78 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~~  141 (352)
                            ..++..+.+      .........+...-...+.+|+||+++...                .+..|+..+....
T Consensus       545 ------~~l~s~~vG------ese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~  612 (806)
T 3cf2_A          545 ------PELLTMWFG------ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  612 (806)
T ss_dssp             ------HHHHTTTCS------SCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSC
T ss_pred             ------chhhccccc------hHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC
Confidence                  112222111      111222333334445679999999995311                1233333322111


Q ss_pred             -CCceEEE-Ee-Cchh----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCC
Q 045677          142 -LGSMIII-TT-RDEH----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGL  207 (352)
Q Consensus       142 -~~~~iii-ts-r~~~----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~  207 (352)
                       ....+|| || |.+.    +....++...+.++.-+.++-.++|+.... .......  -.++.+++.|.|+
T Consensus       613 ~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~-~~~~~~~--~dl~~la~~t~g~  682 (806)
T 3cf2_A          613 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR-KSPVAKD--VDLEFLAKMTNGF  682 (806)
T ss_dssp             SSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSS-CC--CCC---------------
T ss_pred             CCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhc-CCCCCCC--CCHHHHHHhCCCC
Confidence             1223333 33 3222    222235667888877677666776655542 2211111  2255677777764

>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=97.56  E-value=7.8e-05  Score=63.95  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+.+.|+|++|+|||+||.+++..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            366789999999999999999876

>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=97.54  E-value=0.00032  Score=59.96  Aligned_cols=34  Identities=9%  Similarity=-0.055  Sum_probs=26.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC--CcceeEee
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE--FDGSSFLA   67 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~--~~~~~~~~   67 (352)
                      ++.|+|++|+|||||+.+++....+.  ....+|+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId   65 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD   65 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            78999999999999999998876554  23445543

>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=97.53  E-value=0.00026  Score=57.76  Aligned_cols=111  Identities=14%  Similarity=-0.097  Sum_probs=57.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhccc-CCCccchhhhHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLA-DNSIRNVYDGVNMIG  109 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~  109 (352)
                      ...+++++|++|+||||++..++.+...+.....++...-+....        ..+...+.... ........++...+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~--------~~i~srlG~~~~~~~~~~~~~i~~~i~   82 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSI--------RNIQSRTGTSLPSVEVESAPEILNYIM   82 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGC--------SSCCCCCCCSSCCEEESSTHHHHHHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHH--------HHHHHhcCCCccccccCCHHHHHHHHH
Confidence            457899999999999999999988875543333333211110000        01111111100 001122334444444


Q ss_pred             hhhCC-ceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCc
Q 045677          110 SRLRH-KKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRD  152 (352)
Q Consensus       110 ~~l~~-~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~  152 (352)
                      +...+ +.-+|+||++..  .+.++.+.. +.  ..+..+|++.++
T Consensus        83 ~~~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~--~~gi~Vil~Gl~  125 (223)
T 2b8t_A           83 SNSFNDETKVIGIDEVQFFDDRICEVANI-LA--ENGFVVIISGLD  125 (223)
T ss_dssp             STTSCTTCCEEEECSGGGSCTHHHHHHHH-HH--HTTCEEEEECCS
T ss_pred             HHhhCCCCCEEEEecCccCcHHHHHHHHH-HH--hCCCeEEEEecc
Confidence            44433 455999999942  233333322 21  126789999884

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.48  E-value=7.9e-05  Score=65.20  Aligned_cols=48  Identities=29%  Similarity=0.402  Sum_probs=40.3

Q ss_pred             CcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            8 PKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++|++..++.+...+..+    ..++++|++|+|||+||+.+++.+...
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~~   73 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDLD   73 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTCC
T ss_pred             ccceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            467899999999998887743    358899999999999999999877543

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=97.45  E-value=0.00013  Score=64.75  Aligned_cols=48  Identities=25%  Similarity=0.252  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHh-------------cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           10 ELVGMESRLEKLKFLMC-------------TGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~-------------~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|.+..++.+...+.             ......+.++++||+|+|||++|+.++..+.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            46999999999888772             1111346689999999999999999998874

>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=97.33  E-value=0.0016  Score=57.12  Aligned_cols=36  Identities=19%  Similarity=0.209  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |-..|..+=....++.|+|++|+|||+|+.+++...
T Consensus       111 LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          111 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344443222345899999999999999999998874

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.33  E-value=0.00037  Score=56.16  Aligned_cols=45  Identities=24%  Similarity=0.280  Sum_probs=35.6

Q ss_pred             cccHHHHHHHHHHhcC-CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           13 GMESRLEKLKFLMCTG-SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        13 GR~~~l~~l~~~l~~~-~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|+..++.|.+.+.+. .....++.|.|++|+||||+++.+...+.
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4566788888877753 24457899999999999999999987764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.30  E-value=0.00029  Score=60.85  Aligned_cols=58  Identities=12%  Similarity=0.149  Sum_probs=38.3

Q ss_pred             cCcccc----cHHHHHHHHHHhcCCC-CeEEEEEEcCCCCcHHHHHHHHHHHhc-CCCcceeEe
Q 045677            9 KELVGM----ESRLEKLKFLMCTGSN-DVRTIGIWGMGGLGKTTLARVVYDLMS-HEFDGSSFL   66 (352)
Q Consensus         9 ~~~vGR----~~~l~~l~~~l~~~~~-~~~~v~I~G~~GiGKT~La~~~~~~~~-~~~~~~~~~   66 (352)
                      ++|++.    ...++.+.+++..... ..+.++|+|++|+|||+||..++..+. .......++
T Consensus       124 d~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~  187 (308)
T 2qgz_A          124 SDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLL  187 (308)
T ss_dssp             GGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEE
T ss_pred             hhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEE
Confidence            445543    3344556667664222 246789999999999999999999876 543333333

>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=97.27  E-value=0.00034  Score=58.00  Aligned_cols=26  Identities=15%  Similarity=0.110  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|+|++|+|||||+..++...
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            34789999999999999999999863

>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=97.26  E-value=0.00053  Score=60.24  Aligned_cols=37  Identities=27%  Similarity=0.231  Sum_probs=28.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|+|++|+|||||+.+++...........|+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3478999999999999999999887655444455554

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.25  E-value=0.00012  Score=58.00  Aligned_cols=28  Identities=36%  Similarity=0.540  Sum_probs=23.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      |.|+|+||+|+|||||++.+.......|
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            5688999999999999999987755443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.24  E-value=0.00033  Score=56.79  Aligned_cols=41  Identities=17%  Similarity=0.158  Sum_probs=31.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      -+++|.+.+........++.|.|++|+|||||++.+...+.
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44566665554334568999999999999999999987765

>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=97.22  E-value=0.0012  Score=57.98  Aligned_cols=107  Identities=18%  Similarity=0.199  Sum_probs=59.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe-eeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL-ADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSR  111 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (352)
                      .+++|+|+.|+|||||++.++..+.......++. .+..........          ....... ...........+...
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~----------~~v~q~~-~~~~~~~~~~~La~a  192 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKK----------CLVNQRE-VHRDTLGFSEALRSA  192 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSS----------SEEEEEE-BTTTBSCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccc----------cceeeee-eccccCCHHHHHHHH
Confidence            5899999999999999999887764432222222 111000000000          0000000 011123344577788


Q ss_pred             hCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          112 LRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       112 l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      +...|=+|++|+..+.+.++.+....   ..|..+++|+-..
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~  231 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTT  231 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCS
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccC
Confidence            88889999999998776665544432   2244566666544

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=97.22  E-value=0.004  Score=55.11  Aligned_cols=51  Identities=24%  Similarity=0.321  Sum_probs=37.9

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|....+.++...+..-......|+|+|++|+||+.+|+.+.......
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~r~  179 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSGRK  179 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHCCC
T ss_pred             ccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcccc
Confidence            468899888888777665422233458899999999999999887665443

>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=97.20  E-value=0.00017  Score=63.48  Aligned_cols=47  Identities=23%  Similarity=0.340  Sum_probs=35.1

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|.+...+.+.......  ....++|+|++|+|||++|+.+++.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             hhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            45899998666654444321  223489999999999999999998765

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.20  E-value=0.0002  Score=56.33  Aligned_cols=26  Identities=23%  Similarity=0.377  Sum_probs=23.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+|+|+|++|+||||+++.+...+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~   29 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            57899999999999999999988653

>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=97.17  E-value=0.00082  Score=59.29  Aligned_cols=83  Identities=19%  Similarity=0.177  Sum_probs=47.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC----CCccchhhhHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD----NSIRNVYDGVNM  107 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~~  107 (352)
                      ..++.|+|++|+|||+|+.+++..........+|+. ...   ..   ....   ...+.....    ....+.++....
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~-~E~---s~---~~~~---a~~~g~d~~~l~i~~~~~~e~~l~~  143 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID-AEH---AL---DPVY---ARALGVNTDELLVSQPDNGEQALEI  143 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSC---CC---CHHH---HHHTTCCGGGCEEECCSSHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE-CCC---Ch---hHHH---HHHcCCCHHHceeecCCcHHHHHHH
Confidence            468999999999999999999887654444555554 211   11   1111   222211100    112344555555


Q ss_pred             HHhhhC-CceEEEEEeCC
Q 045677          108 IGSRLR-HKKVLLLIDDV  124 (352)
Q Consensus       108 ~~~~l~-~~~~llvlDd~  124 (352)
                      +..... ...-+||||.+
T Consensus       144 l~~l~~~~~~~lVVIDsl  161 (366)
T 1xp8_A          144 MELLVRSGAIDVVVVDSV  161 (366)
T ss_dssp             HHHHHTTTCCSEEEEECT
T ss_pred             HHHHHhcCCCCEEEEeCh
Confidence            554443 34568999998

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.16  E-value=0.00035  Score=55.71  Aligned_cols=40  Identities=15%  Similarity=0.193  Sum_probs=30.2

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +..+..++.. -+....++|+||+|+|||++|..+++.+..
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5566666663 222356899999999999999999988743

>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=97.15  E-value=0.00073  Score=59.43  Aligned_cols=37  Identities=30%  Similarity=0.320  Sum_probs=28.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|+|++|+|||+||.+++..........+|+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            3478999999999999999999987655444455554

>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=97.15  E-value=0.0012  Score=57.41  Aligned_cols=28  Identities=21%  Similarity=0.170  Sum_probs=23.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++.|+|++|+|||+|+.+++.....
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~  133 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQL  133 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhc
Confidence            3478999999999999999999987543

>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=97.11  E-value=0.0021  Score=58.18  Aligned_cols=28  Identities=32%  Similarity=0.596  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +.+.|+|++|+|||+|++.++.....++
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~  179 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH  179 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc
Confidence            4578999999999999999988765443

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.07  E-value=0.0051  Score=53.16  Aligned_cols=37  Identities=22%  Similarity=0.077  Sum_probs=28.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|.|++|+|||+|+.+++...........|++
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            4578999999999999999999877654434445553

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.06  E-value=0.0012  Score=53.36  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +++|.|+||+||+|.|..+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999765

>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=97.04  E-value=0.0023  Score=54.91  Aligned_cols=29  Identities=28%  Similarity=0.314  Sum_probs=25.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+++|+|++|+||||++..++..+...
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            45789999999999999999999887544

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.04  E-value=0.002  Score=52.30  Aligned_cols=27  Identities=22%  Similarity=0.250  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++|+|.|+||+||||.|..++..+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999999765

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.03  E-value=0.0004  Score=54.22  Aligned_cols=25  Identities=20%  Similarity=0.025  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+|+|.|++|+||||+++.++..+.
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            3688999999999999999998765

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=97.01  E-value=0.011  Score=52.68  Aligned_cols=49  Identities=22%  Similarity=0.227  Sum_probs=37.3

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|....++++.+.+..-......|+|+|++|+|||.+|+.+.....
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s~  185 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD  185 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             hhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcC
Confidence            4688999888888887765222334569999999999999988776643

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.00  E-value=0.001  Score=56.72  Aligned_cols=30  Identities=20%  Similarity=0.163  Sum_probs=25.4

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .....+|.|.|++|+|||||++.+...+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            455688999999999999999998877653

>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=96.97  E-value=0.0008  Score=55.95  Aligned_cols=44  Identities=20%  Similarity=0.032  Sum_probs=31.0

Q ss_pred             cccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           13 GMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        13 GR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +....+.++.+.+.........|+|.|++|+||||+++.+++.+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           10 STIDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CHHHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444555555443322345789999999999999999998765

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.95  E-value=0.00083  Score=53.41  Aligned_cols=27  Identities=22%  Similarity=0.417  Sum_probs=23.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+|+|.|++|+||||+++.++..+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   28 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            468999999999999999999887643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.93  E-value=0.00081  Score=53.31  Aligned_cols=29  Identities=34%  Similarity=0.447  Sum_probs=25.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+++|.|++|+||||+++.++..+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~   40 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKE   40 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            45789999999999999999999887543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.93  E-value=0.0031  Score=50.50  Aligned_cols=23  Identities=26%  Similarity=0.104  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -+++|+|++|+|||++|......
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            46789999999999999776544

>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=96.93  E-value=0.00092  Score=53.73  Aligned_cols=27  Identities=30%  Similarity=0.396  Sum_probs=24.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+++|.|++|+||||+++.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            458899999999999999999998875

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.92  E-value=0.00051  Score=54.22  Aligned_cols=26  Identities=15%  Similarity=0.351  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++.|+||+|+|||||++.+.....
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            36899999999999999999987654

>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=0.0028  Score=55.03  Aligned_cols=26  Identities=19%  Similarity=0.146  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|+|++|+|||+|+.+++...
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999998763

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.92  E-value=0.00058  Score=53.70  Aligned_cols=22  Identities=36%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .+++|.|++|+||||+++.+..
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            5789999999999999999987

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.92  E-value=0.00057  Score=54.12  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.|+|+|++|+||||+++.++..+.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5788999999999999999998764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.91  E-value=0.00059  Score=54.83  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|.|++|+||||+++.++..+.
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            36899999999999999999998774

>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=96.90  E-value=0.0011  Score=55.42  Aligned_cols=38  Identities=18%  Similarity=0.160  Sum_probs=29.2

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+..|+....+....++++||+|+|||.|+..+++..
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            34666666432445679999999999999999999764

>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=96.89  E-value=0.0025  Score=55.93  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=24.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++.|+|++|+|||||+..++....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            458999999999999999999998763

>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=96.88  E-value=0.00072  Score=53.82  Aligned_cols=26  Identities=27%  Similarity=0.227  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+|+|.|++|+||||+++.+...+.
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            47899999999999999999988763

>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=96.87  E-value=0.00043  Score=60.75  Aligned_cols=27  Identities=19%  Similarity=-0.002  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+.+.|+|++|+|||+|+..++..+.+
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i~~  200 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSIAY  200 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhh
Confidence            467889999999999999998887644

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.86  E-value=0.0012  Score=56.32  Aligned_cols=28  Identities=21%  Similarity=0.343  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....+++|.|++|+||||+++.+...+.
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~~   58 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEETQ   58 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3467899999999999999999987653

>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=96.84  E-value=0.0057  Score=55.01  Aligned_cols=30  Identities=27%  Similarity=0.119  Sum_probs=25.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+.+++++|++|+||||++..++..+....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G  125 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRG  125 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            368999999999999999999998776543

>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=96.83  E-value=0.00068  Score=54.13  Aligned_cols=27  Identities=15%  Similarity=0.380  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++++|+||+|+|||||++.+.....
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            357899999999999999999987654

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.83  E-value=0.013  Score=48.04  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++--.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3688999999999999999887643

>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=96.81  E-value=0.00071  Score=53.83  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+++|.|++|+|||||++.++..
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            478999999999999999999865

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.81  E-value=0.0082  Score=54.59  Aligned_cols=53  Identities=13%  Similarity=0.052  Sum_probs=34.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQKQLLSDL   90 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   90 (352)
                      ...++.|.|++|+|||+|+.+++...... ...+.|++ .     . ....++...++...
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s-l-----E-~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS-L-----E-MPAAQLTLRMMCSE  252 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE-S-----S-SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE-C-----C-CCHHHHHHHHHHHH
Confidence            45789999999999999999999876533 23344443 1     1 11245666655443

>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=96.81  E-value=0.00075  Score=54.64  Aligned_cols=27  Identities=26%  Similarity=0.271  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+++|+||+|+|||||++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            347899999999999999999987654

>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=96.79  E-value=0.00067  Score=52.99  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+++|.|++|+||||+++.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47899999999999999998 443

>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=96.78  E-value=0.0012  Score=51.60  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+++|.|++|+||||+++.+...+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4789999999999999999998765

>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=96.77  E-value=0.0061  Score=54.89  Aligned_cols=30  Identities=20%  Similarity=0.191  Sum_probs=26.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+.+++++|++|+||||++..++..+....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G  128 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRG  128 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCC
Confidence            368999999999999999999998876653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.76  E-value=0.00068  Score=52.98  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|+|++|+||||+++.++..+.
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            5689999999999999999987754

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.76  E-value=0.00096  Score=55.81  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++++|.|++|+|||||+..++..+.
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            4788999999999999999998764

>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=96.75  E-value=0.00087  Score=53.23  Aligned_cols=27  Identities=26%  Similarity=0.489  Sum_probs=23.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+++|.|++|+||||+++.++..+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   30 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKE   30 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            578999999999999999999887643

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.75  E-value=0.00068  Score=54.71  Aligned_cols=26  Identities=27%  Similarity=0.455  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++|.|++|+||||+++.+...+.
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            46889999999999999999988764

>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=96.74  E-value=0.00071  Score=53.32  Aligned_cols=26  Identities=31%  Similarity=0.388  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.|+|+|++|+||||+++.++..+.
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            36788999999999999999997763

>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=96.73  E-value=0.011  Score=51.23  Aligned_cols=29  Identities=24%  Similarity=0.288  Sum_probs=24.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|+|++|+||||+++.++..+...
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            46899999999999999999998776544

>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=96.72  E-value=0.00096  Score=55.53  Aligned_cols=27  Identities=22%  Similarity=0.249  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+++|.|++|+|||||++.+++.+.
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            346899999999999999999997764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.71  E-value=0.001  Score=53.44  Aligned_cols=26  Identities=38%  Similarity=0.495  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...+++|.|++|+||||+++.++..+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            34789999999999999999998776

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.71  E-value=0.0013  Score=62.43  Aligned_cols=47  Identities=26%  Similarity=0.427  Sum_probs=39.8

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|.+..++.+...+..+    ..++|+|++|+||||||+.++..+...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            56899999999998888843    578999999999999999999876544

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=96.69  E-value=0.0014  Score=59.11  Aligned_cols=51  Identities=20%  Similarity=0.307  Sum_probs=38.3

Q ss_pred             cCcccccHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            9 KELVGMESRLEKLKFLMCTG------------SNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~------------~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+|.+...+.|...+...            ....+-++++|++|+|||++|+.++..+...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~   77 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            46789888888887666320            1123568999999999999999999887544

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.69  E-value=0.0014  Score=51.79  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++|.|++|+||||+++.++..+.
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            46789999999999999999987753

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.67  E-value=0.0013  Score=52.35  Aligned_cols=25  Identities=20%  Similarity=0.206  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+|+|.|++|+||||+++.++..+.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6799999999999999999987753

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.67  E-value=0.012  Score=51.17  Aligned_cols=37  Identities=16%  Similarity=0.079  Sum_probs=28.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...+++|.|++|+|||+|+.+++.........+.|++
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS   81 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS   81 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            3478999999999999999999887654433444443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.66  E-value=0.0071  Score=51.72  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++.|+|++|+||||++..++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999999999988753

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.66  E-value=0.0014  Score=53.06  Aligned_cols=27  Identities=26%  Similarity=0.403  Sum_probs=24.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+|+|.|++|+||||+++.++..+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            689999999999999999999887654

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.65  E-value=0.014  Score=49.81  Aligned_cols=28  Identities=29%  Similarity=0.279  Sum_probs=24.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++.++|++|+||||++..++..+...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~  125 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKK  125 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5788899999999999999999877554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.65  E-value=0.001  Score=53.54  Aligned_cols=25  Identities=20%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+|+|.|++|+||||+++.++..+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998876

>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=96.64  E-value=0.0016  Score=50.54  Aligned_cols=28  Identities=25%  Similarity=0.187  Sum_probs=24.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+++.|.|++|+|||||+..++..+...
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            4678999999999999999999887654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.64  E-value=0.0012  Score=53.16  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++.|.|++|+|||||++.++...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            689999999999999999988764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.62  E-value=0.0013  Score=51.06  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.++|.|++|+||||+++.++..+.
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            6799999999999999999998765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.60  E-value=0.0012  Score=51.72  Aligned_cols=24  Identities=38%  Similarity=0.473  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|.|++|+||||+++.++..+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.60  E-value=0.0015  Score=54.61  Aligned_cols=29  Identities=21%  Similarity=0.366  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ....+|.|.|++|+||||+++.+...+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg~   48 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLGQ   48 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34578999999999999999999887653

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.60  E-value=0.0022  Score=55.34  Aligned_cols=47  Identities=28%  Similarity=0.352  Sum_probs=32.4

Q ss_pred             ccccHHHHHHHHHHhcC--CCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           12 VGMESRLEKLKFLMCTG--SNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        12 vGR~~~l~~l~~~l~~~--~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +|....+..+...+...  ...+.++.|.|++|+|||||++.+...+..
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~~  118 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLSR  118 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            44445555554444432  334568999999999999999998877653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.60  E-value=0.0013  Score=52.43  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+|+|.|++|+||||+++.++..+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.59  E-value=0.0017  Score=52.22  Aligned_cols=26  Identities=27%  Similarity=0.233  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...+|+|.|++|+||||+++.++..+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998765

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.59  E-value=0.0016  Score=54.04  Aligned_cols=36  Identities=17%  Similarity=0.065  Sum_probs=27.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..++.|.|++|+|||||+.+++..........+|+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            468999999999999999988876544433444443

>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=96.59  E-value=0.014  Score=53.96  Aligned_cols=37  Identities=11%  Similarity=-0.068  Sum_probs=28.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~   67 (352)
                      ...++.|.|++|+|||+|+.+++...... ...+.|++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            35789999999999999999999887654 33445543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.58  E-value=0.0024  Score=67.53  Aligned_cols=85  Identities=18%  Similarity=0.129  Sum_probs=50.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcc----cCCCccchhhhHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLML----ADNSIRNVYDGVN  106 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~~~~~~~  106 (352)
                      +.+.+.|+||+|+|||+||.+++.....+.....|+.    .......   +.   +..+...    .-......+....
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~----~e~~~~~---l~---a~~~G~dl~~l~v~~~~~~E~~l~ 1495 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDP---IY---ARKLGVDIDNLLCSQPDTGEQALE 1495 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC----TTSCCCH---HH---HHHTTCCTTTCEEECCSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE----cccccCH---HH---HHHcCCCchhceeecCChHHHHHH
Confidence            4578999999999999999999988776655566664    1111111   11   2222200    0011223345555


Q ss_pred             HHHhhh-CCceEEEEEeCCC
Q 045677          107 MIGSRL-RHKKVLLLIDDVA  125 (352)
Q Consensus       107 ~~~~~l-~~~~~llvlDd~~  125 (352)
                      .+.... ..++-+||||.+.
T Consensus      1496 ~~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1496 ICDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHHHTCCSEEEESCGG
T ss_pred             HHHHHHhcCCCCEEEEcChh
Confidence            555443 3567899999983

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.58  E-value=0.00099  Score=53.46  Aligned_cols=25  Identities=32%  Similarity=0.502  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.+.|+||+|+|||||++.+.....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            5789999999999999999987653

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.58  E-value=0.0043  Score=54.62  Aligned_cols=40  Identities=23%  Similarity=0.353  Sum_probs=29.5

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.+.+....++...|.|+|.+|+|||||+..++..+...
T Consensus        67 ~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~  106 (355)
T 3p32_A           67 QLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIER  106 (355)
T ss_dssp             HHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            3444444334456889999999999999999998876443

>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=96.57  E-value=0.0011  Score=52.47  Aligned_cols=25  Identities=24%  Similarity=0.395  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|+|+|++|+||||+++.++..+.
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            4588999999999999999998764

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=96.56  E-value=0.01  Score=55.71  Aligned_cols=28  Identities=32%  Similarity=0.316  Sum_probs=24.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++++|+|++|+||||++..+...+....
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g  232 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLG  232 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence            6888999999999999999988765543

>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=96.55  E-value=0.0019  Score=52.32  Aligned_cols=28  Identities=21%  Similarity=0.248  Sum_probs=24.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+|+|.|++|+||||+++.++..+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            3689999999999999999999887543

>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=96.54  E-value=0.0021  Score=51.03  Aligned_cols=26  Identities=19%  Similarity=0.153  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+|+|.|++|+||||+++.++..+.
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            47899999999999999999988764

>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=96.53  E-value=0.0018  Score=51.94  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+|+|.|++|+||||+++.++..+.
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            345799999999999999999998764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.53  E-value=0.00092  Score=52.71  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+|+|.|++|+||||+++.+...+..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~~   31 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLPG   31 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHSTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            57999999999999999999877653

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.52  E-value=0.0017  Score=52.13  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .|+|.|++|+||||+++.++..+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~   26 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGY   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCC
Confidence            5889999999999999999987753

>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=96.52  E-value=0.0016  Score=52.48  Aligned_cols=52  Identities=19%  Similarity=0.143  Sum_probs=20.6

Q ss_pred             CCCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677            2 NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus         2 ~~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+||+.+..--+++...+.+.+...  ....--|+|.|.+|+|||||+..+...
T Consensus         2 ~~~~~~~~~~~~~~~~~~~m~~~~~--~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A            2 GSSHHHHHHSSGLVPRGSHMENLYF--QGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             ------------------------------CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcccccccccCCcccchhHHHhHhh--cCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            4566666555566666666655544  233456889999999999999888854

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.52  E-value=0.0014  Score=52.38  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+|+|.|++|+||||+++.++..+.
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999998764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.52  E-value=0.0016  Score=52.47  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|++|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999988765

>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=96.52  E-value=0.0016  Score=53.10  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...|+|.|++|+||||+++.++..+.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            36789999999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.52  E-value=0.0014  Score=51.24  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVV   52 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~   52 (352)
                      ..++.|.|++|+|||||++.+
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            478999999999999999953

>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=96.51  E-value=0.0019  Score=51.28  Aligned_cols=22  Identities=27%  Similarity=0.347  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .++.|.|++|+|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>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=96.51  E-value=0.0013  Score=51.25  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|+|.|++|+||||+++.+...+.
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            4689999999999999999998764

>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=96.51  E-value=0.0015  Score=51.33  Aligned_cols=24  Identities=38%  Similarity=0.516  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.|+|++|+|||||++.++..+.
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            478999999999999999987654

>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=96.51  E-value=0.0017  Score=51.32  Aligned_cols=24  Identities=33%  Similarity=0.327  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...++|+|++|+||||+++.++..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999876

>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=96.50  E-value=0.0014  Score=53.37  Aligned_cols=26  Identities=15%  Similarity=0.152  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+++|.||+|+|||||++.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            47899999999999999999887654

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.49  E-value=0.0019  Score=54.29  Aligned_cols=26  Identities=27%  Similarity=0.519  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+|+|.|++|+||||+++.+...+.
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

>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=96.49  E-value=0.0027  Score=54.50  Aligned_cols=29  Identities=24%  Similarity=0.282  Sum_probs=24.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|+|++|+||||++..++..+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            45789999999999999999998776544

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.48  E-value=0.0033  Score=51.13  Aligned_cols=41  Identities=24%  Similarity=0.253  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+.+...+.  ....+.+.|.|.+|+|||||+..+.......
T Consensus        17 ~~~~~~~~~~--~~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           17 LAEKNREALR--ESGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HHHHHHHHHH--HHTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhc--ccCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            3444444443  2345789999999999999999999876444

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.48  E-value=0.0018  Score=53.09  Aligned_cols=35  Identities=20%  Similarity=0.115  Sum_probs=26.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..++.|.|++|+|||||+..++...........|+
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~   57 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYV   57 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            36899999999999999999987654332333443

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.46  E-value=0.0027  Score=54.78  Aligned_cols=34  Identities=21%  Similarity=0.345  Sum_probs=27.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcce
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGS   63 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~   63 (352)
                      ++.+++.|+|-|||||||.+..++..+.+....+
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkV   79 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRV   79 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCCCeE
Confidence            4569999999999999999999988876654333

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.46  E-value=0.0021  Score=51.95  Aligned_cols=27  Identities=37%  Similarity=0.383  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++.|.|+.|+|||||++.+...+.
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            347899999999999999999887654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.46  E-value=0.0051  Score=50.16  Aligned_cols=29  Identities=28%  Similarity=0.338  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+.++|.|.+|+|||||+..++......
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            45788899999999999999999875433

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.45  E-value=0.003  Score=52.78  Aligned_cols=28  Identities=29%  Similarity=0.342  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+..++|.|++|+||||+++.+...+.
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3457899999999999999999988764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.44  E-value=0.0027  Score=55.27  Aligned_cols=47  Identities=17%  Similarity=0.226  Sum_probs=32.2

Q ss_pred             cccHHHHHHHHHHhc--CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           13 GMESRLEKLKFLMCT--GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        13 GR~~~l~~l~~~l~~--~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +-+...+.+.+.+..  ..+....+.|+|++|+||||+++.++..+...
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~   51 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEK   51 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            334445555555432  23345678899999999999999998876543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.44  E-value=0.02  Score=51.59  Aligned_cols=29  Identities=21%  Similarity=0.265  Sum_probs=25.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+++++|+|.+|+||||++..++..+...
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            46789999999999999999999887665

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.43  E-value=0.0018  Score=52.37  Aligned_cols=28  Identities=18%  Similarity=0.325  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+|+|.|++|+||||+++.+...+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999876543

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.41  E-value=0.0023  Score=49.58  Aligned_cols=24  Identities=21%  Similarity=0.284  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|+|.|++|+||||+++.+...+.
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            478999999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.40  E-value=0.0016  Score=53.17  Aligned_cols=26  Identities=19%  Similarity=0.134  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...|+|.|++|+||||+++.++..+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998765

>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=96.40  E-value=0.0022  Score=51.36  Aligned_cols=26  Identities=35%  Similarity=0.397  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....+|.|+|++|+||||+++.++..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            44578999999999999999999875

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.39  E-value=0.0018  Score=53.13  Aligned_cols=26  Identities=23%  Similarity=0.259  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...|+|.|++|+||||+++.++..+.
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            36799999999999999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.39  E-value=0.032  Score=51.23  Aligned_cols=29  Identities=24%  Similarity=0.252  Sum_probs=24.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|.|+|.+|+||||++..++..+...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            46789999999999999999999877654

>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=96.38  E-value=0.0026  Score=54.23  Aligned_cols=28  Identities=25%  Similarity=0.263  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++++|.||+|+|||+|+..++..+.
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHHhCC
Confidence            3457899999999999999999998753

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.37  E-value=0.0023  Score=52.69  Aligned_cols=26  Identities=23%  Similarity=0.114  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...|+|.|++|+||||+++.++..+.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998764

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.36  E-value=0.0024  Score=51.84  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|+|.|++|+||||+++.++..+.
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            377999999999999999987753

>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=96.36  E-value=0.002  Score=52.02  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++.|.|++|+|||||++.+.....
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999887653

>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=96.35  E-value=0.0024  Score=52.29  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+.|+|++|+||||+++.+...+.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987653

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.35  E-value=0.0016  Score=53.08  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|+|++|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3678999999999999999988755

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.35  E-value=0.0029  Score=49.72  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++.|+|++|+||||+++.+...+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47889999999999999999988764

>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=96.34  E-value=0.0019  Score=51.26  Aligned_cols=25  Identities=24%  Similarity=0.124  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.++|.|++|+|||+||.+++.+.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3678999999999999999998763

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.33  E-value=0.0026  Score=52.07  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|.|++|+|||||++.++...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34789999999999999999998754

>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=96.33  E-value=0.0023  Score=51.57  Aligned_cols=26  Identities=38%  Similarity=0.470  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|+|++|+||||+++.+...+
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            45789999999999999999988653

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.32  E-value=0.0025  Score=54.48  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ++++|.||+|+|||+|+..++..+
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            688999999999999999999765

>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=96.31  E-value=0.0029  Score=48.60  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|.|+.|+|||||++.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            44789999999999999999998876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.31  E-value=0.023  Score=51.80  Aligned_cols=36  Identities=14%  Similarity=0.131  Sum_probs=27.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEe
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFL   66 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~   66 (352)
                      ...++.|.|++|+|||||+.+++...... ...+.|+
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~  238 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIF  238 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEE
Confidence            34789999999999999999999876542 2234444

>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=96.31  E-value=0.021  Score=51.57  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +-+.|.|.+|+|||+|+.+++....+
T Consensus       154 Qr~~Ifgg~G~GKT~L~~~i~~~~~~  179 (482)
T 2ck3_D          154 GKIGLFGGAGVGKTVLIMELINNVAK  179 (482)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTT
T ss_pred             CeeeeecCCCCChHHHHHHHHHhhHh
Confidence            56789999999999999999988643

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.31  E-value=0.0027  Score=50.45  Aligned_cols=24  Identities=38%  Similarity=0.631  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +++|.|++|+||||+++.+...+.
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            588999999999999999998774

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.28  E-value=0.0033  Score=50.85  Aligned_cols=27  Identities=30%  Similarity=0.251  Sum_probs=23.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+++|.|++|+||||+++.+...+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            347899999999999999999988765

>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=96.28  E-value=0.0026  Score=51.62  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .|+|.|++|+||||+++.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37799999999999999998765

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.27  E-value=0.015  Score=49.69  Aligned_cols=36  Identities=25%  Similarity=0.158  Sum_probs=27.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|+|++|+||||++..++..+.... ..+.+.
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~-~~v~l~  132 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG-RRPLLV  132 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT-CCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEe
Confidence            357888999999999999999998765443 334443

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.27  E-value=0.0037  Score=48.89  Aligned_cols=27  Identities=22%  Similarity=0.331  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+++.|.|++|+|||||+..+...+..
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            468899999999999999999987643

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.26  E-value=0.0081  Score=51.93  Aligned_cols=36  Identities=19%  Similarity=0.180  Sum_probs=27.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ...++.|+|++|+||||++..++..+.... ..+.+.
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g-~kVlli  139 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAELG-YKVLIA  139 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHTT-CCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEE
Confidence            467899999999999999999998776543 334443

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.26  E-value=0.0025  Score=51.19  Aligned_cols=25  Identities=24%  Similarity=0.193  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+|+|.|++|+||||+++.+...+
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            3679999999999999999998876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.25  E-value=0.0023  Score=52.12  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..|+|.|++|+||||+++.++..+.
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5688999999999999999998764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.24  E-value=0.0041  Score=52.16  Aligned_cols=108  Identities=13%  Similarity=0.158  Sum_probs=55.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeecc--ccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVR--ERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMI  108 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (352)
                      ...++.|+|+.|+|||||++.+.......+...+++..-.  ........           +........ +...+...+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~-----------~v~q~~~gl-~~~~l~~~l   91 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKS-----------IVNQREVGE-DTKSFADAL   91 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSS-----------EEEEEEBTT-TBSCHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcce-----------eeeHHHhCC-CHHHHHHHH
Confidence            3478999999999999999998876543322333332110  00000000           000000000 002233445


Q ss_pred             HhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          109 GSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       109 ~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      ...+...+-++++|+..+.+....++...   ..+..+++|+-+.
T Consensus        92 a~aL~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~  133 (261)
T 2eyu_A           92 RAALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTN  133 (261)
T ss_dssp             HHHHHHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCS
T ss_pred             HHHHhhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcc
Confidence            55555677799999997665544443321   2344566666543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.23  E-value=0.0026  Score=55.00  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++|.||.|+|||+|+..+++.+.
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            36899999999999999999997653

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.21  E-value=0.003  Score=52.72  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++.|.|++|+||||+++.++..+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999997764

>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=96.19  E-value=0.0073  Score=48.56  Aligned_cols=29  Identities=14%  Similarity=-0.172  Sum_probs=24.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+.+++|+.|.||||.+...+.+....
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~   55 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFA   55 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            45788999999999999998888776444

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.19  E-value=0.0047  Score=52.95  Aligned_cols=28  Identities=29%  Similarity=0.258  Sum_probs=24.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++.|+|+.|+||||+++.++..+..
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            4578999999999999999999877643

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.19  E-value=0.0033  Score=54.18  Aligned_cols=26  Identities=31%  Similarity=0.313  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++|+|++|+|||||+..++..+.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            36899999999999999999998754

>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=96.18  E-value=0.091  Score=43.17  Aligned_cols=41  Identities=20%  Similarity=0.108  Sum_probs=29.5

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +-=|+.+.+.+..++..   + . ++|+|+.|+|||.++..++...
T Consensus        92 ~~l~~~Q~~ai~~~~~~---~-~-~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           92 ISLRDYQEKALERWLVD---K-R-GCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCCCHHHHHHHHHHTTT---S-E-EEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHHhC---C-C-EEEEeCCCCCHHHHHHHHHHHc
Confidence            44456666666666552   1 2 7899999999999998887765

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.18  E-value=0.0015  Score=52.94  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +|+|.|++|+||||+++.+...+..
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            6889999999999999999987653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.17  E-value=0.0035  Score=54.34  Aligned_cols=25  Identities=32%  Similarity=0.191  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+|+|.|++|+|||||+..++..+.
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            6899999999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.17  E-value=0.0042  Score=49.10  Aligned_cols=25  Identities=24%  Similarity=0.064  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|+|+.|+||||++.+++.+..
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~   28 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYK   28 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999988777653

>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=96.15  E-value=0.003  Score=50.71  Aligned_cols=21  Identities=38%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .|.|+|++|+||||+++.++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            588999999999999999987

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.15  E-value=0.0065  Score=49.29  Aligned_cols=28  Identities=14%  Similarity=-0.032  Sum_probs=23.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      -.|++.|+||+||||++..++..+....
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G   34 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQG   34 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            4488999999999999999988876553

>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=96.15  E-value=0.0035  Score=54.05  Aligned_cols=28  Identities=36%  Similarity=0.425  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....++.|.|++|+|||||++.+...+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            4468999999999999999999887654

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.14  E-value=0.0042  Score=51.60  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|.|+.|+|||||++.++..+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34789999999999999999988765

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.12  E-value=0.0035  Score=51.42  Aligned_cols=25  Identities=20%  Similarity=0.371  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|.|++|+||||+++.++..+.
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999988764

>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=96.10  E-value=0.0037  Score=50.30  Aligned_cols=22  Identities=41%  Similarity=0.527  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .++.|+|++|+||||+++.+..
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            4689999999999999999875

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.08  E-value=0.0041  Score=50.86  Aligned_cols=24  Identities=42%  Similarity=0.486  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|.|++|+||||+++.++..+.
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            578999999999999999988763

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.07  E-value=0.0039  Score=51.73  Aligned_cols=26  Identities=31%  Similarity=0.196  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|.|++|+|||+|+.+++...
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~   54 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG   54 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34789999999999999999987653

>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=96.05  E-value=0.0061  Score=56.03  Aligned_cols=50  Identities=8%  Similarity=-0.030  Sum_probs=36.5

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +..+.|..-.+.+.+...........+++.|.+|+||||+++.++..+..
T Consensus       372 P~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          372 PEWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CTTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             CccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34556655556666655322334478999999999999999999999875

>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=96.04  E-value=0.023  Score=51.02  Aligned_cols=29  Identities=28%  Similarity=0.194  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|+|++|+||||++..++..+...
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            35788899999999999999999887655

>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=96.03  E-value=0.0066  Score=55.51  Aligned_cols=40  Identities=18%  Similarity=0.224  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      ..+...+..+.   +.++|.|++|+|||+++..++..+.....
T Consensus        35 ~~~~~~i~~~~---~~~li~G~aGTGKT~ll~~~~~~l~~~~~   74 (459)
T 3upu_A           35 NIVMKAIKEKK---HHVTINGPAGTGATTLTKFIIEALISTGE   74 (459)
T ss_dssp             HHHHHHHHSSS---CEEEEECCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcCC---CEEEEEeCCCCCHHHHHHHHHHHHHhcCC
Confidence            34444555322   48899999999999999999988755433

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.01  E-value=0.013  Score=47.71  Aligned_cols=29  Identities=28%  Similarity=0.369  Sum_probs=25.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ....+|+|.|+.|+||||+++.+.+.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            34688999999999999999999998765

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.01  E-value=0.0052  Score=52.60  Aligned_cols=28  Identities=21%  Similarity=0.155  Sum_probs=24.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++.|.|++|+|||||+..++..+...
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~   62 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTA   62 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            3689999999999999999998876543

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.00  E-value=0.0086  Score=49.13  Aligned_cols=28  Identities=32%  Similarity=0.319  Sum_probs=25.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...+++|.|++|+||||+++.+...+..
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            4578999999999999999999998765

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.00  E-value=0.0024  Score=52.49  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=16.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH-HHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY-DLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~-~~~   56 (352)
                      ..++.|+|++|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999988 553

>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=95.99  E-value=0.0051  Score=49.97  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..+|+|.|++|+||||+++.+..
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            36899999999999999999875

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.95  E-value=0.0068  Score=53.19  Aligned_cols=28  Identities=29%  Similarity=0.258  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++.|+|+.|+||||++..++..+..
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            4578999999999999999999887643

>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=95.95  E-value=0.0048  Score=50.02  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ++|.|++|+||||+++.++..+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999876

>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=95.94  E-value=0.0053  Score=49.35  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++.|.|++|+||||+++.++..+.
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            789999999999999999988764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.94  E-value=0.0034  Score=51.75  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.+.-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999999998775

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=95.93  E-value=0.011  Score=50.84  Aligned_cols=28  Identities=39%  Similarity=0.395  Sum_probs=24.1

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....++.|.|+.|+|||||++.+...+.
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            3457899999999999999999887665

>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=95.92  E-value=0.0083  Score=53.05  Aligned_cols=27  Identities=33%  Similarity=0.224  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .....+.|+|++|+|||||++.++...
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            345789999999999999999998754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.92  E-value=0.0035  Score=52.14  Aligned_cols=25  Identities=32%  Similarity=0.533  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..++|+|++|+||||+++.++..+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5799999999999999999998765

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.92  E-value=0.011  Score=56.43  Aligned_cols=47  Identities=21%  Similarity=0.106  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      +..+.+...|...    .+.+|+||||+|||+.+.++...+-... ..+.++
T Consensus       193 ~Q~~AV~~al~~~----~~~lI~GPPGTGKT~ti~~~I~~l~~~~-~~ILv~  239 (646)
T 4b3f_X          193 SQKEAVLFALSQK----ELAIIHGPPGTGKTTTVVEIILQAVKQG-LKVLCC  239 (646)
T ss_dssp             HHHHHHHHHHHCS----SEEEEECCTTSCHHHHHHHHHHHHHHTT-CCEEEE
T ss_pred             HHHHHHHHHhcCC----CceEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEE
Confidence            4455666666522    4788999999999987777666543332 244444

>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=95.90  E-value=0.056  Score=44.32  Aligned_cols=22  Identities=32%  Similarity=0.259  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      +.++|.|+.|+|||+++..+.-
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~   98 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFIL   98 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHHh
Confidence            6789999999999987766543

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.90  E-value=0.0097  Score=49.76  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=24.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++++.|.+|+||||++..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            457888999999999999999998876

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.88  E-value=0.0054  Score=54.33  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++++|.||+|+|||+|+..++..+.
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            6889999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.87  E-value=0.0046  Score=49.07  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.|+|+.|+|||||++.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            578999999999999999887764

>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=95.86  E-value=0.02  Score=51.41  Aligned_cols=29  Identities=21%  Similarity=0.124  Sum_probs=24.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+++|+|+.|+|||||++.++..+...
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            34789999999999999999998876544

>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=95.86  E-value=0.0054  Score=52.59  Aligned_cols=23  Identities=35%  Similarity=0.338  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+++|.|++|+||||+++.+...
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            57899999999999999999874

>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=95.86  E-value=0.007  Score=48.13  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+|.|+|..|+||||+++.+...+
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            5678999999999999999998764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.85  E-value=0.0084  Score=50.81  Aligned_cols=27  Identities=22%  Similarity=0.199  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ..++.|+|++|+|||||+..++..+..
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            368999999999999999999876543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.85  E-value=0.0029  Score=49.32  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +.+.|+|++|+|||||+..+...+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            47899999999999999999877654

>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=95.82  E-value=0.01  Score=62.05  Aligned_cols=85  Identities=19%  Similarity=0.178  Sum_probs=49.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC----CCccchhhhHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD----NSIRNVYDGVN  106 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~  106 (352)
                      ...++.|+|++|+|||+|+.+++...........|+. ...   ...   .+.   +..+.....    ....+.++...
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis-~E~---s~~---~~~---a~~lGvd~~~L~i~~~~~~e~~l~  451 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEH---ALD---PIY---ARKLGVDIDNLLCSQPDTGEQALE  451 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC-TTS---CCC---HHH---HHHTTCCGGGCEEECCSSHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE-ccC---chH---HHH---HHHcCCCHHHeEEcCCCCHHHHHH
Confidence            4578999999999999999999988665555556654 211   111   111   222211100    11234445555


Q ss_pred             HHHhhh-CCceEEEEEeCCC
Q 045677          107 MIGSRL-RHKKVLLLIDDVA  125 (352)
Q Consensus       107 ~~~~~l-~~~~~llvlDd~~  125 (352)
                      .+.... ....-+||+|.+.
T Consensus       452 ~l~~lv~~~~~~lVVIDSL~  471 (1706)
T 3cmw_A          452 ICDALARSGAVDVIVVDSVA  471 (1706)
T ss_dssp             HHHHHHHHTCCSEEEESCST
T ss_pred             HHHHHHHhcCCCEEEECCHH
Confidence            554433 3456699999983

>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=95.82  E-value=0.033  Score=50.57  Aligned_cols=35  Identities=29%  Similarity=0.354  Sum_probs=26.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~   66 (352)
                      .+-+.|.|.+|+|||+|+.+++....+ +.+..+|.
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~  200 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG  200 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE
Confidence            355789999999999999999988643 33444443

>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=95.81  E-value=0.0057  Score=51.93  Aligned_cols=24  Identities=25%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+|.|+|++|+||||+++.+..
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            357899999999999999999983

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.81  E-value=0.0029  Score=53.99  Aligned_cols=27  Identities=19%  Similarity=0.336  Sum_probs=20.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+|.|.|++|+||||+++.+...+.
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            346899999999999999999988654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.80  E-value=0.0053  Score=50.75  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            68899999999999999998753

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.80  E-value=0.0059  Score=47.15  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-|+|.|++|+||||+|..+..+
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            67899999999999999999874

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.79  E-value=0.005  Score=52.68  Aligned_cols=26  Identities=15%  Similarity=0.304  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|+|++|+|||||++.+..-+
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            44789999999999999999988765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.79  E-value=0.0028  Score=59.79  Aligned_cols=51  Identities=20%  Similarity=0.199  Sum_probs=35.3

Q ss_pred             CCcCcccccHHHHHHHHHHhcCCC---------CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            7 IPKELVGMESRLEKLKFLMCTGSN---------DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~~~~---------~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+.++|.+...+.+...+..+..         ....++++|++|+|||+||+.++....
T Consensus       293 l~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~  352 (595)
T 3f9v_A          293 IAPSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAP  352 (595)
T ss_dssp             TSSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCS
T ss_pred             hcchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCC
Confidence            346788998766666555542210         001589999999999999999886653

>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=95.79  E-value=0.0049  Score=55.52  Aligned_cols=27  Identities=19%  Similarity=0.190  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ....+|+|+|++|+||||+++.++..+
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            346889999999999999999988764

>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=95.79  E-value=0.0081  Score=54.73  Aligned_cols=29  Identities=24%  Similarity=0.273  Sum_probs=24.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+++|+|++|+|||||++.++..+...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~  320 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ  320 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc
Confidence            45799999999999999999998776543

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.78  E-value=0.0012  Score=57.80  Aligned_cols=38  Identities=18%  Similarity=0.074  Sum_probs=27.1

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...+.+..- .+.+-+.|.|++|+|||+|+.++++....
T Consensus       164 raID~l~Pi-grGQR~lIfg~~g~GKT~Ll~~Ia~~i~~  201 (427)
T 3l0o_A          164 RLIDLFAPI-GKGQRGMIVAPPKAGKTTILKEIANGIAE  201 (427)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECTTCCHHHHHHHHHHHHHH
T ss_pred             hhhhhcccc-cCCceEEEecCCCCChhHHHHHHHHHHhh
Confidence            344445542 23356789999999999999999887643

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.78  E-value=0.012  Score=47.70  Aligned_cols=28  Identities=18%  Similarity=0.167  Sum_probs=25.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+|+|.|+.|+||||++..+...+...
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            4789999999999999999999988655

>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=95.77  E-value=0.0044  Score=51.15  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++--.
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999887543

>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=95.76  E-value=0.0076  Score=46.43  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++|.|++|+|||||++.+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5688999999999999999875

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.75  E-value=0.0046  Score=50.59  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .++.|.|+.|+|||||++.++-
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6889999999999999998774

>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=95.72  E-value=0.0056  Score=50.77  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.++-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            47899999999999999999875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.71  E-value=0.0046  Score=49.89  Aligned_cols=23  Identities=30%  Similarity=0.117  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999988754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.71  E-value=0.027  Score=44.94  Aligned_cols=33  Identities=18%  Similarity=0.220  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +|+|-|.-|+||||.++.+++.+.......++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~t   34 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILK   34 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            578899999999999999999887664444443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.70  E-value=0.012  Score=62.32  Aligned_cols=84  Identities=18%  Similarity=0.155  Sum_probs=49.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC----CCccchhhhHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD----NSIRNVYDGVN  106 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~  106 (352)
                      ...++.|+|++|+|||+|+.+++...........|+. ...   ..   ..+.   +..+.....    ....+..++..
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis-~E~---s~---~~~~---a~~lGvd~~~L~I~~~~~~e~il~  451 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEH---AL---DPIY---ARKLGVDIDNLLCSQPDTGEQALE  451 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC-TTS---CC---CHHH---HHHTTCCTTTCEEECCSSHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE-cCC---CH---HHHH---HHHcCCCHHHeEEeCCCCHHHHHH
Confidence            3578999999999999999999988766544555554 211   11   1111   222221100    01234455555


Q ss_pred             HHHhhh-CCceEEEEEeCC
Q 045677          107 MIGSRL-RHKKVLLLIDDV  124 (352)
Q Consensus       107 ~~~~~l-~~~~~llvlDd~  124 (352)
                      .+.... ....-+||+|.+
T Consensus       452 ~~~~lv~~~~~~lIVIDSL  470 (2050)
T 3cmu_A          452 ICDALARSGAVDVIVVDSV  470 (2050)
T ss_dssp             HHHHHHHHTCCSEEEESCG
T ss_pred             HHHHHHHhcCCcEEEECCH
Confidence            554333 345679999998

>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=95.68  E-value=0.033  Score=61.03  Aligned_cols=143  Identities=12%  Similarity=0.064  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      +.++++||+|+|||++|+.+.... ..+.......                            ....+.......+...+
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~-~~~~~~~inf----------------------------sa~ts~~~~~~~i~~~~ 1318 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS-SLYDVVGINF----------------------------SKDTTTEHILSALHRHT 1318 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC-SSCEEEEEEC----------------------------CTTCCHHHHHHHHHHHB
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC-CCCceEEEEe----------------------------ecCCCHHHHHHHHHHHh


Q ss_pred             ---------------CCceEEEEEeCC-------CChhhhhhhhCCCCCCCC-------------CceEEEEeCchh---
Q 045677          113 ---------------RHKKVLLLIDDV-------ADVEQLRGLFGKRDWFGL-------------GSMIIITTRDEH---  154 (352)
Q Consensus       113 ---------------~~~~~llvlDd~-------~~~~~~~~l~~~~~~~~~-------------~~~iiitsr~~~---  154 (352)
                                     .+++.++.+||+       +......++++.+.+.+.             +..+|.++-...   
T Consensus      1319 ~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gG 1398 (2695)
T 4akg_A         1319 NYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPG 1398 (2695)
T ss_dssp             CCEEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTT
T ss_pred             hhccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCC


Q ss_pred             ----HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHc
Q 045677          155 ----LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYA  204 (352)
Q Consensus       155 ----~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~  204 (352)
                          .....+....+.++..+.++-..++...........+........++..+
T Consensus      1399 R~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1399 RIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             CCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHH
T ss_pred             CccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.67  E-value=0.0083  Score=47.43  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|++|+|||||+..+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457889999999999999998764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.67  E-value=0.005  Score=51.66  Aligned_cols=24  Identities=38%  Similarity=0.468  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999988753

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.66  E-value=0.0082  Score=45.74  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-|+|.|.+|+|||||+..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999998764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.66  E-value=0.012  Score=53.35  Aligned_cols=36  Identities=22%  Similarity=0.069  Sum_probs=27.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ...++.|.|++|+|||+|+.+++.........+.|+
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~f  231 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLH  231 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEE
Confidence            457899999999999999999998865443334444

>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=95.60  E-value=0.0056  Score=48.19  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|++|+|||||++.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998875

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=95.60  E-value=0.015  Score=52.75  Aligned_cols=25  Identities=28%  Similarity=0.170  Sum_probs=19.2

Q ss_pred             eEEEEEEcCCCCcHHHHHH-HHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLAR-VVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~-~~~~~~   56 (352)
                      .+-+.|.|.+|+|||+|+. .+++..
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          162 GQRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             TCBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             CCEEEEECCCCCCchHHHHHHHHHhh
Confidence            3557899999999999964 555554

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.59  E-value=0.0067  Score=51.03  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368899999999999999988764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=95.59  E-value=0.016  Score=48.85  Aligned_cols=31  Identities=23%  Similarity=0.340  Sum_probs=24.0

Q ss_pred             HhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           25 MCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        25 l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.........|+|.|.+|+|||||++.+...
T Consensus        32 ~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           32 LKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             HHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HhhcCCCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4433344567889999999999999998854

>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=95.58  E-value=0.026  Score=52.54  Aligned_cols=36  Identities=19%  Similarity=0.141  Sum_probs=26.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ...++.|.|++|+|||||+..++..........+++
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~  315 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACANKERAILF  315 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            346899999999999999999987755433233444

>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=95.58  E-value=0.0075  Score=47.81  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-.++|.|++|+|||||++.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999998865

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.58  E-value=0.017  Score=53.76  Aligned_cols=50  Identities=16%  Similarity=0.131  Sum_probs=35.0

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +..+.|..-.+.+.+..........+|+++|.+|+||||+++.+...+..
T Consensus       349 p~~~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          349 PEWFTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CTTTSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CccccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            34455555555565555322334578999999999999999999987654

>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=95.58  E-value=0.0057  Score=51.30  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcC
Confidence            468899999999999999988753

>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=95.57  E-value=0.006  Score=51.49  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.++-
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            36889999999999999998875

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.57  E-value=0.012  Score=52.43  Aligned_cols=26  Identities=15%  Similarity=0.116  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...++.|+|++|+|||||+.+++-..
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~  202 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTC  202 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHh
Confidence            34789999999999999999887543

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=95.57  E-value=0.066  Score=48.10  Aligned_cols=25  Identities=20%  Similarity=0.231  Sum_probs=21.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...++.+|.|++|+|||+++.+.+.
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc
Confidence            4578999999999999999988763

>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=95.56  E-value=0.0076  Score=50.17  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68899999999999999998863

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.55  E-value=0.0085  Score=49.52  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.+|+|.|..|+||||+++.++..+.
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            36899999999999999999998864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.55  E-value=0.0059  Score=51.15  Aligned_cols=25  Identities=32%  Similarity=0.559  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..++.|.|+.|+|||||++.++--.
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3689999999999999999987543

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.55  E-value=0.011  Score=55.18  Aligned_cols=49  Identities=22%  Similarity=0.194  Sum_probs=32.1

Q ss_pred             cccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           11 LVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        11 ~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+.+....+.+.......-....+++|+|++|+|||||++.++..+...
T Consensus       348 ~f~~peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~~~  396 (552)
T 3cr8_A          348 WYSFPEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLMEM  396 (552)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHHTT
T ss_pred             cccccchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhccc
Confidence            3444444444444331111234789999999999999999999887643

>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=95.54  E-value=0.0067  Score=54.30  Aligned_cols=24  Identities=21%  Similarity=0.387  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...++.|.|++|+|||||++.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            346899999999999999999886

>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=95.54  E-value=0.0078  Score=48.02  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++|.|++|+|||||++.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45889999999999999998864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.53  E-value=0.02  Score=49.88  Aligned_cols=28  Identities=29%  Similarity=0.488  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....++.|.|++|+|||||++.+...+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence            4458899999999999999999886653

>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=95.53  E-value=0.022  Score=46.83  Aligned_cols=28  Identities=32%  Similarity=0.483  Sum_probs=24.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+|+|.|++|+||||++..+...+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~   54 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN   54 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4789999999999999999999887654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.52  E-value=0.024  Score=45.82  Aligned_cols=28  Identities=36%  Similarity=0.380  Sum_probs=24.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+|+|.|+.|+||||+++.+...+....
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~   31 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLG   31 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            6899999999999999999998876543

>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=95.51  E-value=0.0067  Score=50.15  Aligned_cols=22  Identities=27%  Similarity=0.438  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .++.|.|+.|+|||||++.++-
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6889999999999999998875

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.50  E-value=0.012  Score=46.11  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=21.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....-|+|.|.+|+|||||+..+...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999887643

>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=95.50  E-value=0.0067  Score=50.73  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999988753

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.50  E-value=0.0063  Score=51.32  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999988753

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.50  E-value=0.0063  Score=50.82  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999988753

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.50  E-value=0.0068  Score=50.36  Aligned_cols=23  Identities=39%  Similarity=0.699  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68899999999999999988653

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.48  E-value=0.043  Score=52.15  Aligned_cols=35  Identities=20%  Similarity=0.222  Sum_probs=25.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ++++|+|++|+|||+++..++..+.......+.++
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~  230 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  230 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEE
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            47889999999999999888877654333344443

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.48  E-value=0.0057  Score=49.58  Aligned_cols=23  Identities=30%  Similarity=0.573  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57889999999999999988753

>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=95.47  E-value=0.0068  Score=47.42  Aligned_cols=21  Identities=24%  Similarity=0.145  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++|+|.+|+|||++|.+++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999855

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.47  E-value=0.0069  Score=50.89  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.++-
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            36889999999999999998875

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.47  E-value=0.021  Score=49.88  Aligned_cols=29  Identities=24%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .+..++.|.|++|+|||||+..++..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~   82 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIR   82 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            45688999999999999999999876543

>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=95.46  E-value=0.017  Score=46.42  Aligned_cols=28  Identities=32%  Similarity=0.459  Sum_probs=24.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++|+|-|.-|+||||+++.+...+.+.+
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~   30 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDY   30 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCC
Confidence            6899999999999999999999886543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.46  E-value=0.012  Score=50.39  Aligned_cols=31  Identities=16%  Similarity=0.173  Sum_probs=24.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHH
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      +++|.+.+.     ..++.|.|++|+|||||++.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            444544443     2578899999999999999988

>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=95.46  E-value=0.018  Score=50.02  Aligned_cols=37  Identities=27%  Similarity=0.271  Sum_probs=29.1

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ...+++++.|.||+||||++..++..+.+.......+
T Consensus        14 ~~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vlli   50 (334)
T 3iqw_A           14 RSLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLL   50 (334)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEE
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEE
Confidence            4468899999999999999999998887654434333

>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=95.44  E-value=0.016  Score=60.71  Aligned_cols=84  Identities=18%  Similarity=0.129  Sum_probs=54.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcc----cCCCccchhhhHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLML----ADNSIRNVYDGVN  106 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~~~~~~~  106 (352)
                      +.++|-|+||.|+||||||.+++...++......|+.    ..+..+.  ..    +..++-.    ....++..++.++
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~----~e~~~~~--~~----~~~~Gv~~~~l~~~~p~~~e~~l~ 1499 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDP--IY----ARKLGVDIDNLLCSQPDTGEQALE 1499 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC----TTSCCCH--HH----HHHTTCCGGGCEEECCSSHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe----cCCCCCH--HH----HHHcCCCHHHeEEeCCCcHHHHHH
Confidence            4589999999999999999999988777766677775    2211111  11    3332221    1122444566666


Q ss_pred             HHHhhhC-CceEEEEEeCC
Q 045677          107 MIGSRLR-HKKVLLLIDDV  124 (352)
Q Consensus       107 ~~~~~l~-~~~~llvlDd~  124 (352)
                      .+...++ +..-+||+|-+
T Consensus      1500 ~~~~~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1500 ICDALARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             HHHHHHHHTCCSEEEESCS
T ss_pred             HHHHHHHcCCCCEEEEccH
Confidence            6666664 56679999998

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.43  E-value=0.011  Score=46.36  Aligned_cols=24  Identities=21%  Similarity=0.273  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...|+|.|++|+|||||++.+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356889999999999999998863

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.43  E-value=0.017  Score=50.57  Aligned_cols=38  Identities=24%  Similarity=0.307  Sum_probs=29.2

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhc--CCCcceeEe
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMS--HEFDGSSFL   66 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~--~~~~~~~~~   66 (352)
                      ....+++++.|.||+||||++..++..+.  ........+
T Consensus        15 ~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vlli   54 (348)
T 3io3_A           15 HDSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLI   54 (348)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEE
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEE
Confidence            34568999999999999999999998877  544333333

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.43  E-value=0.0082  Score=50.59  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.|.|++|+|||||++.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.41  E-value=0.016  Score=47.31  Aligned_cols=28  Identities=29%  Similarity=0.334  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+|+|.|+.|+||||+++.+++.+...
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4789999999999999999999887654

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.41  E-value=0.013  Score=44.93  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            345789999999999999998864

>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=95.39  E-value=0.014  Score=51.74  Aligned_cols=108  Identities=12%  Similarity=0.134  Sum_probs=55.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGS  110 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (352)
                      ...++.|+|++|+||||+++.+...+.......+....- ..  .... ..   .+  .+....... .+...+...+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~-~~--e~~~-~~---~~--~~v~Q~~~g-~~~~~~~~~l~~  204 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIED-PI--EYVF-KH---KK--SIVNQREVG-EDTKSFADALRA  204 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEES-SC--CSCC-CC---SS--SEEEEEEBT-TTBSCSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecc-cH--hhhh-cc---Cc--eEEEeeecC-CCHHHHHHHHHH
Confidence            347899999999999999999987654332223322210 00  0000 00   00  000000000 011233455666


Q ss_pred             hhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677          111 RLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus       111 ~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+...+-+|++|+..+.+.+...+...   ..+..++.|+-
T Consensus       205 ~L~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H  242 (372)
T 2ewv_A          205 ALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLH  242 (372)
T ss_dssp             HTTSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCC
T ss_pred             HhhhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEEC
Confidence            666778899999997666554443322   22344555544

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.38  E-value=0.0078  Score=50.02  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++.|.|+.|+|||||++.++--.
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            578999999999999999887544

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.36  E-value=0.0075  Score=50.71  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.++-
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36889999999999999998775

>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=95.36  E-value=0.0059  Score=55.12  Aligned_cols=28  Identities=29%  Similarity=0.332  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++++.|+|++|+||||++..++..+...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999876544

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.34  E-value=0.0097  Score=45.43  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.34  E-value=0.017  Score=50.61  Aligned_cols=27  Identities=22%  Similarity=0.346  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....|.|+|++|+|||||++.+.....
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            368899999999999999999987653

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=95.34  E-value=0.024  Score=49.73  Aligned_cols=32  Identities=25%  Similarity=0.340  Sum_probs=26.6

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .....++++.|.||+||||++..++..+.+..
T Consensus        23 ~~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G   54 (349)
T 3ug7_A           23 KDGTKYIMFGGKGGVGKTTMSAATGVYLAEKG   54 (349)
T ss_dssp             SCSCEEEEEECSSSTTHHHHHHHHHHHHHHSS
T ss_pred             cCCCEEEEEeCCCCccHHHHHHHHHHHHHHCC
Confidence            45568888999999999999999998876553

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=95.33  E-value=0.022  Score=47.75  Aligned_cols=36  Identities=17%  Similarity=0.209  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+.+.+.........|+|.|.+|+|||||+..+...
T Consensus        24 ~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           24 EFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            333344433345567889999999999999998864

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.30  E-value=0.019  Score=48.21  Aligned_cols=36  Identities=22%  Similarity=0.412  Sum_probs=26.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      +++.|.|.||+||||++..++..+.+... .+.+.++
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~-~VlliD~   37 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGK-TIMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTC-CEEEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCC-cEEEEcC
Confidence            46677899999999999999998876533 3333333

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.29  E-value=0.013  Score=48.29  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ....+.|.|++|+||||+++.++..+.
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            346799999999999999999987654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.29  E-value=0.0086  Score=50.69  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            367899999999999999988753

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=95.28  E-value=0.015  Score=45.00  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||++.+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            45889999999999999988753

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.28  E-value=0.0086  Score=49.92  Aligned_cols=23  Identities=26%  Similarity=0.562  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|+.|+|||||++.++--
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999988754

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.27  E-value=0.011  Score=45.17  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|++|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            34889999999999999988764

>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=95.27  E-value=0.011  Score=46.48  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.+|+|+.|+|||||+..+..-+.
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            3788999999999999999886543

>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=95.27  E-value=0.0092  Score=52.25  Aligned_cols=23  Identities=39%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.||+|+|||||++.++-
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            36889999999999999999875

>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=95.25  E-value=0.022  Score=51.10  Aligned_cols=26  Identities=15%  Similarity=0.239  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +-+.|.|.+|+|||+|+.++++....
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            44678999999999999998887654

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.24  E-value=0.012  Score=47.54  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|++|+|||||+..+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4467889999999999999998865

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=95.24  E-value=0.15  Score=47.43  Aligned_cols=65  Identities=12%  Similarity=0.229  Sum_probs=38.5

Q ss_pred             eEEEEEeCCCChh-----hhhhhhCCCC--CCCCCceEEEEeCchh---Hhhh--cCcccEEecCCCCHhHHHHHHH
Q 045677          116 KVLLLIDDVADVE-----QLRGLFGKRD--WFGLGSMIIITTRDEH---LLKL--HRVEEVYKLEALNFDEAFRLFC  180 (352)
Q Consensus       116 ~~llvlDd~~~~~-----~~~~l~~~~~--~~~~~~~iiitsr~~~---~~~~--~~~~~~~~l~~l~~~e~~~ll~  180 (352)
                      .++||+|++.+.-     .+...+..+.  -...|.++|++|....   +...  ......+-+..-+..++..++-
T Consensus       344 ~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          344 TIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             EEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHHS
T ss_pred             cEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhcC
Confidence            4799999997542     2222221111  1246888888887643   1111  2344567777788888888774

>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=95.22  E-value=0.037  Score=50.36  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLA-RVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La-~~~~~~~~   57 (352)
                      +-+.|.|.+|+|||+|| ..+++...
T Consensus       163 QR~~I~g~~g~GKT~Lal~~I~~q~~  188 (510)
T 2ck3_A          163 QRELIIGDRQTGKTSIAIDTIINQKR  188 (510)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHH
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHh
Confidence            55779999999999995 45555544

>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=95.22  E-value=0.021  Score=53.47  Aligned_cols=28  Identities=25%  Similarity=0.209  Sum_probs=24.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...+|+|.|++|+||||+++.+...+..
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            4578999999999999999999988763

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=95.21  E-value=0.012  Score=45.29  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998854

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.21  E-value=0.013  Score=44.82  Aligned_cols=21  Identities=29%  Similarity=0.200  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.21  E-value=0.013  Score=45.45  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|.+|+|||||+..+...
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            4467889999999999999998753

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.19  E-value=0.012  Score=45.14  Aligned_cols=22  Identities=14%  Similarity=0.261  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998864

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=95.19  E-value=0.018  Score=44.75  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....-|+|.|.+|+|||||+..+...
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34466889999999999999998865

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=95.18  E-value=0.012  Score=44.95  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||+..+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999998864

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=95.16  E-value=0.012  Score=45.56  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            355889999999999999998754

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=95.15  E-value=0.013  Score=45.07  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||++.+...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998865

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=95.14  E-value=0.012  Score=45.21  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.13  E-value=0.012  Score=45.18  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|.+|+|||||+..+..
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            478999999999999998863

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=95.11  E-value=0.018  Score=44.82  Aligned_cols=25  Identities=28%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...-|+|.|.+|+|||||+..+...
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999988764

>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=95.11  E-value=0.01  Score=48.74  Aligned_cols=26  Identities=31%  Similarity=0.150  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....++.|.|+.|+||||+++.+...
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34579999999999999999887754

>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=95.11  E-value=0.012  Score=51.69  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            36889999999999999999875

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.11  E-value=0.013  Score=46.07  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..--|+|.|.+|+|||||+..+...
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3455889999999999999888764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.10  E-value=0.013  Score=51.38  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36889999999999999999875

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=95.10  E-value=0.014  Score=44.75  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||++.+...
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            34789999999999999998864

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.09  E-value=0.012  Score=50.84  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +.+++.|+|+.|+|||||++.+....
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            35789999999999999999988653

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.09  E-value=0.013  Score=46.10  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999999864

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.09  E-value=0.014  Score=45.29  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..|+|.|.+|+|||||++.+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999998754

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.08  E-value=0.029  Score=44.00  Aligned_cols=34  Identities=21%  Similarity=0.221  Sum_probs=25.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      +..+.+++.   ....-|+|.|.+|+|||||+..+..
T Consensus         5 ~~~~~~~~~---~~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A            5 FTRIWRLFN---HQEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             HHHHHHHHT---TSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHHhcC---CCccEEEEECCCCCCHHHHHHHHhc
Confidence            344555333   3346788999999999999999884

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.08  E-value=0.012  Score=51.70  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            36889999999999999999875

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=95.08  E-value=0.015  Score=50.44  Aligned_cols=34  Identities=26%  Similarity=0.265  Sum_probs=27.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeE
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSF   65 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~   65 (352)
                      ..++++.|.||+||||++..++..+.+.......
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLl   47 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLV   47 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEE
Confidence            5788899999999999999999887665333333

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.08  E-value=0.011  Score=45.23  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|.+|+|||||++.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            378999999999999988753

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.07  E-value=0.011  Score=49.54  Aligned_cols=24  Identities=42%  Similarity=0.584  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++.|.|+.|+|||||++.++--.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999887543

>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=95.06  E-value=0.012  Score=51.90  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.||+|+|||||++.++-
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            36889999999999999999875

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.06  E-value=0.014  Score=46.11  Aligned_cols=25  Identities=16%  Similarity=0.355  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|.+|+|||||+..+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998753

>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=95.05  E-value=0.0082  Score=51.48  Aligned_cols=23  Identities=30%  Similarity=0.619  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|+|++|+|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            46899999999999999988765

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=95.04  E-value=0.013  Score=46.41  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      --|+|.|.+|+|||||+..+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4588999999999999998874

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.03  E-value=0.018  Score=44.20  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
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            45789999999999999998853

>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=95.02  E-value=0.013  Score=51.73  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            36889999999999999999875

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.01  E-value=0.01  Score=50.50  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++--
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999988754

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.01  E-value=0.015  Score=44.65  Aligned_cols=23  Identities=17%  Similarity=0.199  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
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            45789999999999999998864

>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=94.99  E-value=0.02  Score=49.12  Aligned_cols=33  Identities=24%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++++.+++.     ..++.|.|++|+|||||++.+...
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhccc
Confidence            444555444     257889999999999999988743

>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=94.99  E-value=0.0075  Score=50.60  Aligned_cols=27  Identities=26%  Similarity=0.398  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +..+|+|.|..|+||||+++.++..+.
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            457899999999999999998887653

>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=94.99  E-value=0.023  Score=52.62  Aligned_cols=29  Identities=17%  Similarity=0.235  Sum_probs=24.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+|+++|.+|+||||+++.++..+...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~   62 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWI   62 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            34789999999999999999999876533

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.98  E-value=0.02  Score=44.02  Aligned_cols=24  Identities=33%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
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            356889999999999999998754

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.96  E-value=0.015  Score=45.79  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||+|+..+...
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            355889999999999999988864

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=94.95  E-value=0.011  Score=51.71  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|++|+|||||++.++--
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcC
Confidence            368899999999999999998753

>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=94.93  E-value=0.015  Score=51.36  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .++.|.|++|+|||||++.++-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCcHHHHHHHHHHc
Confidence            6889999999999999999875

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=94.92  E-value=0.016  Score=44.92  Aligned_cols=24  Identities=25%  Similarity=0.238  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998864

>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=94.91  E-value=0.014  Score=51.14  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.+.-
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHhc
Confidence            46889999999999999988775

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.91  E-value=0.019  Score=46.49  Aligned_cols=27  Identities=30%  Similarity=0.391  Sum_probs=24.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ..+|+|.|+.|+||||++..+.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            478999999999999999999998876

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=94.91  E-value=0.014  Score=45.94  Aligned_cols=22  Identities=32%  Similarity=0.274  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||||+..+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            3789999999999999998754

>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=94.91  E-value=0.02  Score=44.81  Aligned_cols=24  Identities=29%  Similarity=0.182  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            455789999999999999998864

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.90  E-value=0.015  Score=45.05  Aligned_cols=23  Identities=22%  Similarity=0.153  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
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            45789999999999999998854

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.88  E-value=0.02  Score=44.72  Aligned_cols=24  Identities=33%  Similarity=0.320  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...-|+|.|++|+|||||+..+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            446788999999999999987763

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=94.87  E-value=0.017  Score=45.53  Aligned_cols=24  Identities=25%  Similarity=0.216  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            355889999999999999998864

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.87  E-value=0.016  Score=45.88  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..|+|.|.+|+|||||+..+...
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999998863

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.87  E-value=0.025  Score=48.10  Aligned_cols=36  Identities=22%  Similarity=0.415  Sum_probs=26.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      +++.|.|.||+||||++..++..+.+.. ..+.+.++
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G-~rVlliD~   38 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMG-KKVMIVGC   38 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT-CCEEEEEE
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCC-CeEEEEec
Confidence            5677799999999999999998876543 23444343

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=94.86  E-value=0.017  Score=45.32  Aligned_cols=23  Identities=22%  Similarity=0.354  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.85  E-value=0.016  Score=45.62  Aligned_cols=24  Identities=17%  Similarity=0.412  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...|+|.|.+|+|||||+..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999998764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=94.85  E-value=0.017  Score=45.63  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345889999999999999998864

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=94.83  E-value=0.013  Score=45.64  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||+|+..+...
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            45889999999999999998864

>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=94.82  E-value=0.042  Score=50.00  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCCcHHHHHH-HHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLAR-VVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~-~~~~~~   56 (352)
                      +-+.|.|.+|+|||+|+. .+++..
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~  200 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQK  200 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTT
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhh
Confidence            557899999999999964 555544

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.81  E-value=0.027  Score=43.61  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345889999999999999998753

>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=94.81  E-value=0.021  Score=51.88  Aligned_cols=25  Identities=24%  Similarity=0.175  Sum_probs=19.1

Q ss_pred             eEEEEEEcCCCCcHHHHHH-HHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLAR-VVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~-~~~~~~   56 (352)
                      .+-+.|.|.+|+|||+|+. .+++..
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~~  188 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQQ  188 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHhh
Confidence            3557899999999999964 555543

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=94.80  E-value=0.018  Score=44.82  Aligned_cols=23  Identities=22%  Similarity=0.219  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||+..+...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998864

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.80  E-value=0.02  Score=45.86  Aligned_cols=27  Identities=19%  Similarity=0.068  Sum_probs=24.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+|+|.|+.|+||||+++.++..+.-.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~   33 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIP   33 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            589999999999999999999987544

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.80  E-value=0.017  Score=45.26  Aligned_cols=24  Identities=21%  Similarity=0.273  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            355889999999999999998864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.76  E-value=0.021  Score=44.28  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=20.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...-|+|.|.+|+|||||+..+..
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHhc
Confidence            345688999999999999988864

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.76  E-value=0.018  Score=50.90  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+.|+|++|+|||||++.++....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999887643

>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=94.76  E-value=0.022  Score=43.11  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.+|+|+.|+|||+++..+..-+
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            688899999999999998887654

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.76  E-value=0.019  Score=44.64  Aligned_cols=24  Identities=29%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            345889999999999999998764

>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=94.75  E-value=0.01  Score=47.64  Aligned_cols=24  Identities=13%  Similarity=0.176  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ....++|.|++|+|||||++.+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999987653

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=94.74  E-value=0.019  Score=44.86  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            356889999999999999998864

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=94.74  E-value=0.019  Score=44.85  Aligned_cols=23  Identities=26%  Similarity=0.169  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999988754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=94.73  E-value=0.018  Score=46.56  Aligned_cols=21  Identities=33%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~   53 (352)
                      .-|+|.|.+|+|||+|+..+.
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~   58 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFA   58 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            458899999999999999886

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=94.73  E-value=0.019  Score=44.69  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999998853

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.72  E-value=0.019  Score=45.61  Aligned_cols=23  Identities=13%  Similarity=0.170  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999998865

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.72  E-value=0.01  Score=51.94  Aligned_cols=23  Identities=39%  Similarity=0.619  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36889999999999999999875

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=94.71  E-value=0.025  Score=45.10  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...-|+|.|.+|+|||||+..+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999998764

>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=94.71  E-value=0.019  Score=49.15  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +...|+|.|.+|+|||||++.+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3568999999999999999998854

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=94.71  E-value=0.02  Score=44.63  Aligned_cols=23  Identities=26%  Similarity=0.122  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999888754

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.70  E-value=0.019  Score=45.26  Aligned_cols=23  Identities=26%  Similarity=0.166  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            34889999999999999998865

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=94.69  E-value=0.025  Score=45.40  Aligned_cols=25  Identities=28%  Similarity=0.137  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..--|+|.|.+|+|||||+..+...
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999998864

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=94.69  E-value=0.02  Score=45.08  Aligned_cols=24  Identities=21%  Similarity=0.165  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            345889999999999999998864

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.68  E-value=0.032  Score=43.47  Aligned_cols=25  Identities=24%  Similarity=0.438  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..--|+|.|.+|+|||||+..+...
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999998864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.68  E-value=0.016  Score=51.36  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999998875

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=94.67  E-value=0.02  Score=46.45  Aligned_cols=22  Identities=23%  Similarity=0.208  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||+|+..+...
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3778999999999999988753

>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=94.67  E-value=0.05  Score=56.33  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...|.|+|++|+|||||+..+..
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~r 1127 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLER 1127 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            36789999999999999998875

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.67  E-value=0.02  Score=45.42  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            355889999999999999998864

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.67  E-value=0.02  Score=45.04  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999998864

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=94.65  E-value=0.092  Score=51.30  Aligned_cols=34  Identities=21%  Similarity=0.223  Sum_probs=25.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ++++|+|++|+|||+++..++..+.......+.+
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv  405 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLV  405 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEE
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEE
Confidence            5788999999999999988887765432334444

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.63  E-value=0.021  Score=45.08  Aligned_cols=23  Identities=30%  Similarity=0.226  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||||+..+...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45889999999999999998764

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.63  E-value=0.019  Score=45.88  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
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            356889999999999999998764

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=94.63  E-value=0.02  Score=45.45  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=19.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      ...-|+|.|.+|+|||||+..+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            34568899999999999998875

>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=94.62  E-value=0.028  Score=46.48  Aligned_cols=34  Identities=32%  Similarity=0.627  Sum_probs=25.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      |.|.|.||+||||++..++..+.+... .+.+.++
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~-~VlliD~   36 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYD-KIYAVDG   36 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCS-CEEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCC-eEEEEeC
Confidence            455999999999999999998876643 3444443

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=94.62  E-value=0.021  Score=44.95  Aligned_cols=24  Identities=25%  Similarity=0.203  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998754

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=94.62  E-value=0.04  Score=43.62  Aligned_cols=28  Identities=14%  Similarity=-0.236  Sum_probs=23.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+.+++|+.|+||||.+...+.+....
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~~~   35 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAKIA   35 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            4799999999999999998888876433

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=94.61  E-value=0.025  Score=46.52  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...-|+|.|.+|+|||||++.+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567899999999999999998854

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=94.61  E-value=0.02  Score=45.30  Aligned_cols=24  Identities=17%  Similarity=0.245  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345889999999999999998864

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.60  E-value=0.019  Score=46.47  Aligned_cols=25  Identities=32%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++.|+|++|+||||+++.+...+.
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g   28 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELS   28 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4688999999999999999887653

>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=94.60  E-value=0.02  Score=50.08  Aligned_cols=23  Identities=30%  Similarity=0.458  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .++.|.|++|+|||||++.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            57889999999999999988743

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.60  E-value=0.025  Score=44.78  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=21.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....-|+|.|.+|+|||||+..+...
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34577899999999999999888753

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=94.60  E-value=0.032  Score=44.44  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998754

>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=94.60  E-value=0.052  Score=49.27  Aligned_cols=23  Identities=30%  Similarity=0.274  Sum_probs=17.9

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLA-RVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La-~~~~~~   55 (352)
                      +-+.|.|.+|+|||+|+ ..+++.
T Consensus       163 QR~~Ifg~~g~GKT~l~l~~I~n~  186 (513)
T 3oaa_A          163 QRELIIGDRQTGKTALAIDAIINQ  186 (513)
T ss_dssp             CBCEEEESSSSSHHHHHHHHHHTT
T ss_pred             CEEEeecCCCCCcchHHHHHHHhh
Confidence            55779999999999996 455543

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=94.58  E-value=0.025  Score=48.68  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +....|+|+|.+|+|||||++.+...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            45688999999999999999998753

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=94.58  E-value=0.022  Score=45.06  Aligned_cols=24  Identities=29%  Similarity=0.259  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            345889999999999999998864

>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=94.57  E-value=0.031  Score=50.42  Aligned_cols=26  Identities=19%  Similarity=0.264  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +-+.|.|.+|+|||+|+.+++.....
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~  178 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQASV  178 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            44667899999999999999987653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.53  E-value=0.018  Score=50.78  Aligned_cols=25  Identities=36%  Similarity=0.486  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+.|+|+.|+|||||++.+...+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            5789999999999999999987654

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=94.52  E-value=0.021  Score=45.47  Aligned_cols=23  Identities=30%  Similarity=0.183  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||+..+...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.52  E-value=0.021  Score=45.48  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...-|+|.|.+|+|||||+..+...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3456889999999999999998864

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.50  E-value=0.24  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.198  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++|.|+.|+|||+++..++..
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999977766543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.50  E-value=0.023  Score=45.16  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999998754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=94.49  E-value=0.028  Score=45.29  Aligned_cols=24  Identities=38%  Similarity=0.403  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999998753

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=94.49  E-value=0.023  Score=45.69  Aligned_cols=24  Identities=25%  Similarity=0.174  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...|+|.|.+|+|||||+..+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356889999999999999998864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.49  E-value=0.023  Score=44.83  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            345889999999999999998864

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=94.48  E-value=0.027  Score=45.93  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....-|+|.|.+|+|||||+..+...
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34577899999999999999988754

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=94.47  E-value=0.049  Score=47.27  Aligned_cols=35  Identities=29%  Similarity=0.245  Sum_probs=27.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCccee
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSS   64 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~   64 (352)
                      +..+++++.|.||+||||++..++..+.+......
T Consensus        17 ~~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVl   51 (329)
T 2woo_A           17 TSLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVL   51 (329)
T ss_dssp             TTCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEE
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEE
Confidence            34578889999999999999999988776543333

>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=94.44  E-value=0.017  Score=49.44  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      --|+|.|++|+|||||++.++.
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            3468999999999999999764

>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=94.44  E-value=0.021  Score=45.42  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-|+|.|++|+|||||+..+..
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=94.44  E-value=0.024  Score=44.64  Aligned_cols=23  Identities=35%  Similarity=0.341  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||+..+...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999998864

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.43  E-value=0.028  Score=52.94  Aligned_cols=27  Identities=26%  Similarity=0.372  Sum_probs=24.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+|+|+|.+|+||||+++.+...+.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            457899999999999999999998873

>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=94.43  E-value=0.099  Score=48.06  Aligned_cols=23  Identities=30%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-+.|.|++|+|||+|+.++++.
T Consensus       228 qr~~I~g~~g~GKT~L~~~ia~~  250 (588)
T 3mfy_A          228 GTAAIPGPAGSGKTVTQHQLAKW  250 (588)
T ss_dssp             CEEEECSCCSHHHHHHHHHHHHH
T ss_pred             CeEEeecCCCCCHHHHHHHHHhc
Confidence            56789999999999999998765

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=94.41  E-value=0.044  Score=48.09  Aligned_cols=36  Identities=25%  Similarity=0.201  Sum_probs=27.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc--CCCcceeE
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS--HEFDGSSF   65 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~--~~~~~~~~   65 (352)
                      ....++++.|.||+||||++..++..+.  +.......
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLL   53 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLL   53 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEE
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEE
Confidence            3457888899999999999999998877  55433333

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=94.40  E-value=0.023  Score=45.38  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999998764

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=94.36  E-value=0.039  Score=50.49  Aligned_cols=27  Identities=19%  Similarity=0.272  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...|+++|.+|+||||+++.++..+..
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            467899999999999999999987653

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.36  E-value=0.033  Score=44.03  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
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            356889999999999999998864

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=94.35  E-value=0.026  Score=44.50  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=19.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||++.+...
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            345889999999999999655544

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=94.34  E-value=0.023  Score=45.25  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            355889999999999999988743

>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=94.33  E-value=0.092  Score=47.18  Aligned_cols=26  Identities=15%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +-+.|.|.+|+|||+|+.++++....
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~~a  173 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQATV  173 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHCBC
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHh
Confidence            45678999999999999998877543

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.32  E-value=0.026  Score=45.23  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999998854

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=94.31  E-value=0.021  Score=44.64  Aligned_cols=24  Identities=25%  Similarity=0.180  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999998753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.30  E-value=0.025  Score=44.91  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .--|+|.|.+|+|||||+..+...
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            355889999999999999988753

>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=94.25  E-value=0.063  Score=55.61  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...+.|+|++|+|||||++.+...
T Consensus       444 G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          444 GQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             TCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             CcEEEEEecCCCcHHHHHHHhccc
Confidence            468999999999999999888753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.25  E-value=0.025  Score=44.69  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||||+..+...
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999988743

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.24  E-value=0.026  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.284  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999988763

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=94.22  E-value=0.043  Score=43.76  Aligned_cols=36  Identities=25%  Similarity=0.238  Sum_probs=25.3

Q ss_pred             EEEEEE-cCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           33 RTIGIW-GMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        33 ~~v~I~-G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      +++.|+ +.||+||||++..++..+.+... .+.+.++
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~-~vlliD~   38 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGY-NIAVVDT   38 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTC-CEEEEEC
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCC-eEEEEEC
Confidence            455565 78999999999999998766533 3344333

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=94.19  E-value=0.033  Score=43.59  Aligned_cols=25  Identities=20%  Similarity=0.238  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...-|+|.|.+|+|||||+..+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3466889999999999999988754

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=94.18  E-value=0.091  Score=51.36  Aligned_cols=25  Identities=28%  Similarity=0.197  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++++|.|++|+|||+++..++..+.
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~~l~  400 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVYHLS  400 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999888776543

>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=94.16  E-value=0.024  Score=50.83  Aligned_cols=21  Identities=38%  Similarity=0.550  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.|+|++|+|||||++.++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            899999999999999998753

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=94.15  E-value=0.035  Score=43.89  Aligned_cols=23  Identities=26%  Similarity=0.198  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .--|+|.|.+|+|||+|+..+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999998763

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.14  E-value=0.028  Score=44.34  Aligned_cols=23  Identities=26%  Similarity=0.195  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|.+|+|||+|+..+...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998865

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.14  E-value=0.024  Score=49.28  Aligned_cols=85  Identities=18%  Similarity=0.208  Sum_probs=48.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      ..+.|+|+.|+|||||++.+...+... ...+.+.+....... .. .       .. .....   .........+...+
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~~-~g~i~i~~~~e~~~~-~~-~-------~~-i~~~~---ggg~~~r~~la~aL  237 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFK-HH-K-------NY-TQLFF---GGNITSADCLKSCL  237 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTT-SCEEEEESSCCCCCS-SC-S-------SE-EEEEC---BTTBCHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCC-CcEEEECCeeccccc-cc-h-------hE-EEEEe---CCChhHHHHHHHHh
Confidence            579999999999999999988765432 334444322111000 00 0       00 00000   02234445566667


Q ss_pred             CCceEEEEEeCCCChhhhh
Q 045677          113 RHKKVLLLIDDVADVEQLR  131 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~  131 (352)
                      ..++-++++|+..+.+.++
T Consensus       238 ~~~p~ilildE~~~~e~~~  256 (330)
T 2pt7_A          238 RMRPDRIILGELRSSEAYD  256 (330)
T ss_dssp             TSCCSEEEECCCCSTHHHH
T ss_pred             hhCCCEEEEcCCChHHHHH
Confidence            7788899999997644444

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=94.13  E-value=0.03  Score=45.15  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||+|+..+...
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45889999999999999998764

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=94.13  E-value=0.032  Score=47.79  Aligned_cols=25  Identities=24%  Similarity=0.298  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|.+|+|||||++.+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999998854

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=94.13  E-value=0.029  Score=44.77  Aligned_cols=24  Identities=17%  Similarity=0.162  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||+|+..+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            455889999999999999998753

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=94.09  E-value=0.03  Score=44.63  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345889999999999999988864

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.09  E-value=0.035  Score=45.21  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      -+.|.|++|+||||++..++..+.
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhC
Confidence            367999999999999999987763

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.08  E-value=0.017  Score=45.15  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=10.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||||+..+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            355889999999999999888743

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=94.08  E-value=0.031  Score=47.83  Aligned_cols=23  Identities=26%  Similarity=0.250  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++|.|++|+||||+|..+..+
T Consensus       145 ~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          145 VGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHhc
Confidence            67999999999999999999874

---

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	352
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-39

>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 =  139 bits (350), Expect = 2e-39
 Identities = 41/267 (15%), Positives = 84/267 (31%), Gaps = 21/267 (7%)

Query: 7   IPKE--LVGMESRLEKL-KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYD----LMSHE 59
           +PK+      E  ++++ K L      D   + + G  G GK+ +A         L+   
Sbjct: 16  VPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 75

Query: 60  FDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYD-----GVNMIGSRLRH 114
           +D   +L        K    +     L+        N     +         +  + +  
Sbjct: 76  YDSIVWL-KDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR 134

Query: 115 KKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTRDEHLLKLHRVE-EVYKLEALNFD 173
              L + DDV   E        R    L    ++TTRD  +        E  ++ +L  D
Sbjct: 135 PNTLFVFDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEID 188

Query: 174 EAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQERL 233
           E +              +E  ++    ++ +SG P  + +       +  ++      +L
Sbjct: 189 ECYDFLEAYGMPMPVGEKEE-DVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKL 247

Query: 234 KRDPENKILGILQISFDGLKEAEKNIF 260
           +      +  I   S+  L  A +   
Sbjct: 248 ESRGLVGVECITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	352
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.71
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.42
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.33
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.27
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.26
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.22
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.22
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.18
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.15
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.14
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.13
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.03
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.03
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.96
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.94
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.9
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.88
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.86
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.83
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.81
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.75
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.29
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.23
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.98
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.9
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.77
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.76
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.71
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.66
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.66
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.65
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.6
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.58
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.56
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.56
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.54
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.52
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.52
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.5
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.49
d1okkd2	207	GTPase domain of the signal recognition particle r	97.48
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.47
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.46
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.45
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.45
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.44
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.44
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.4
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.33
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.32
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.32
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.31
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.31
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.29
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.26
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.26
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.22
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.21
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.21
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.18
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.18
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.18
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.18
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.17
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.13
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.12
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.11
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.1
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.09
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.08
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.07
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.07
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.03
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.95
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.94
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.92
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.91
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.89
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.86
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.85
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.83
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.82
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.81
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.8
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.79
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.76
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.75
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.75
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.74
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.71
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.71
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.68
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.67
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.65
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.64
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.61
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.6
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.6
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.59
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.54
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.54
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.45
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.43
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.42
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.34
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.33
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.29
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.26
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.25
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.25
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.22
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.22
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.08
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.06
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.03
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.03
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.92
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.92
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.91
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.9
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.89
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.88
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.87
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.86
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.86
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.83
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.78
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.78
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.78
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.78
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.77
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.76
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.76
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.75
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.73
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.73
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.73
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.73
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.71
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.71
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.71
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.7
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.7
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.69
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.69
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.67
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.66
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.66
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.65
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.62
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.62
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.62
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.62
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.62
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.61
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.6
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.6
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.58
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.57
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.57
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.53
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.53
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.52
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.52
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.51
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.51
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.5
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.49
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.47
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.47
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.46
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.45
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.4
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.4
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.4
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.39
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.35
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.33
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.32
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.3
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.28
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.27
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.23
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.21
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.2
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.16
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.16
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.16
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.1
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.08
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.07
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.05
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.97
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.89
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.88
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.88
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.84
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.83
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.78
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.77
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.75
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.74
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.71
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.65
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.61
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.61
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.58
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.57
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.54
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.53
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.37
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.36
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.35
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.23
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.1
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.09
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.03
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	93.93
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	93.38
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.35
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	93.11
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.07
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	93.05
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.0
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.29
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.14
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.74
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	91.62
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	91.6
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.15
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.15
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.98
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.86
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.65
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	90.57
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.52
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.48
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.93
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	89.58
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	89.46
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.22
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	88.71
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	88.69
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	88.68
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	88.58
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.03
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.53
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	85.55
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	85.35
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	85.29
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	85.26
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.2
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	85.02
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	84.05
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	83.9
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	83.71
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	83.58
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	82.28
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	82.17
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	82.01
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.78
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	81.33
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	81.29
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	81.2
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	81.2
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	81.06
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	81.01
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	80.96
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	80.68

>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=1.3e-35  Score=253.24  Aligned_cols=246  Identities=15%  Similarity=0.112  Sum_probs=187.9

Q ss_pred             CCCcCcccccHHHHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHH----hcCCCcceeEeeeccccccCCCcHH
Q 045677            6 EIPKELVGMESRLEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDL----MSHEFDGSSFLADVRERCDKEGSVI   80 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~   80 (352)
                      +....++||+.++++|.++|.. .+.+.++|.|+|+||+||||||++++++    ...+|+..+|+...+.    ... .
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~----~~~-~   91 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT----APK-S   91 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCC----STT-H
T ss_pred             CCCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCC----CCH-H
Confidence            3455678999999999999875 3455789999999999999999999987    4555778888863322    222 3


Q ss_pred             HHHHHH---HHHHhcccCCC------ccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           81 SLQKQL---LSDLLMLADNS------IRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        81 ~l~~~~---~~~~~~~~~~~------~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                      .+...+   +..+.......      ..........+...+.++++|+||||+|+...++.+..      .+++||+|||
T Consensus        92 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR  165 (277)
T d2a5yb3          92 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEES
T ss_pred             HHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEee
Confidence            333333   32222211111      11223334456677889999999999999999887653      3789999999


Q ss_pred             chhHhhhcCcc-cEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHHHhhcCCChhHHHHHH
Q 045677          152 DEHLLKLHRVE-EVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLVSFLFGRPVDQWRSTQ  230 (352)
Q Consensus       152 ~~~~~~~~~~~-~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~~~l~~~~~~~~~~~~  230 (352)
                      +..++...... ..+++++|+.+|+++||...++..... +..++..++|+++|+|+||||+.+|+.++.++.+.|....
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~  244 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLN  244 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHH
T ss_pred             hHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHH
Confidence            99887765443 679999999999999999887655433 3467888999999999999999999999988888999888


Q ss_pred             HHHccCCchhHHHHHHhhhccCcHhhhhhhhhh
Q 045677          231 ERLKRDPENKILGILQISFDGLKEAEKNIFLDV  263 (352)
Q Consensus       231 ~~~~~~~~~~~~~~l~~~~~~L~~~~~~~l~~l  263 (352)
                      +.+.+.....+..++..+|+.||++.|.||.++
T Consensus       245 ~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         245 NKLESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            888776667888899999999999999999764

>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=99.71  E-value=9.1e-17  Score=136.38  Aligned_cols=205  Identities=13%  Similarity=0.111  Sum_probs=117.3

Q ss_pred             CCCCCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            2 NSELEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         2 ~~~~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |.|...+..||||+.++++|.+.      ..+.++|+|++|+|||+|+.+++......+   .|+...............
T Consensus         5 ~~p~~~~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~   75 (283)
T d2fnaa2           5 TSPKDNRKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGINELNLPY---IYLDLRKFEERNYISYKD   75 (283)
T ss_dssp             SSCCCSGGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEEEGGGGTTCSCCCHHH
T ss_pred             CCCCCChhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEEEeccccccccccHHH
Confidence            55666789999999999999774      236889999999999999999998876543   222211112222223334


Q ss_pred             HHHHHHHHHhccc-----------C--------------CC---ccchhhhHHHHHhhhCCceEEEEEeCCCChh-----
Q 045677           82 LQKQLLSDLLMLA-----------D--------------NS---IRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-----  128 (352)
Q Consensus        82 l~~~~~~~~~~~~-----------~--------------~~---~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-----  128 (352)
                      +...+........           .              ..   ........+.+. ...++++++++|+++...     
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~  154 (283)
T d2fnaa2          76 FLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGV  154 (283)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTC
T ss_pred             HHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchH
Confidence            4433332211000           0              00   111222222221 235688999999984321     


Q ss_pred             hhhhhhCCCCCCCCCceEEEEeCchhHhh-h-----------cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHH
Q 045677          129 QLRGLFGKRDWFGLGSMIIITTRDEHLLK-L-----------HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLEL  196 (352)
Q Consensus       129 ~~~~l~~~~~~~~~~~~iiitsr~~~~~~-~-----------~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~  196 (352)
                      .+...+............+++++...... .           .+....+.|.+++.+++.+++.+.........    +.
T Consensus       155 ~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~----~~  230 (283)
T d2fnaa2         155 NLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF----KD  230 (283)
T ss_dssp             CCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC----CC
T ss_pred             HHHHHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH----HH
Confidence            11111111111123445555554432211 1           11235789999999999999977552222222    22


Q ss_pred             HHHHHHHcCCCchhHHHHHHhhcC
Q 045677          197 AKCFVKYASGLPLAVDVLVSFLFG  220 (352)
Q Consensus       197 ~~~i~~~~~G~Pl~i~~~~~~l~~  220 (352)
                      .+.+++.++|+|.+|+.++..+..
T Consensus       231 ~~~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         231 YEVVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            568999999999999998876643

>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=99.42  E-value=6e-12  Score=105.68  Aligned_cols=197  Identities=14%  Similarity=0.142  Sum_probs=114.6

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhc----CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcH
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCT----GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSV   79 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~----~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (352)
                      |-..|..++||+.+++++.++|..    .+...+.++|+||+|+|||++++.+++.+.......+.+...    ......
T Consensus        11 ~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~----~~~~~~   86 (276)
T d1fnna2          11 PSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYING----FIYRNF   86 (276)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEET----TTCCSH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecc----hhhhhh
Confidence            444677899999999999998874    334567899999999999999999999987665444433322    222232


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHhhhC--CceEEEEEeCCCChhh-----hhhhhCCCCC-CCCCceEEEEeC
Q 045677           80 ISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLR--HKKVLLLIDDVADVEQ-----LRGLFGKRDW-FGLGSMIIITTR  151 (352)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~llvlDd~~~~~~-----~~~l~~~~~~-~~~~~~iiitsr  151 (352)
                      ............................+.....  ....++++|+++....     ...+...... ......+|.++.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  166 (276)
T d1fnna2          87 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGH  166 (276)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEES
T ss_pred             hhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCC
Confidence            5555566655444444444445555555554442  4566777888753221     2222222111 122334555555


Q ss_pred             chhHhhhc-------CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHc
Q 045677          152 DEHLLKLH-------RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYA  204 (352)
Q Consensus       152 ~~~~~~~~-------~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~  204 (352)
                      ........       .....+.+.+++.++..+++.++...........++.++.|++.+
T Consensus       167 ~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~  226 (276)
T d1fnna2         167 NDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADIT  226 (276)
T ss_dssp             STHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHH
T ss_pred             chhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHh
Confidence            43322211       123568899999999999988754211111112235556665543

>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=99.33  E-value=3.8e-11  Score=98.91  Aligned_cols=152  Identities=15%  Similarity=0.181  Sum_probs=100.4

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC------CcceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE------FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      +..+||+.|++++.+.|..+  ...-++++|++|+|||+++..+++++...      ....+|..+....-..       
T Consensus        18 d~~igRd~Ei~~l~~iL~r~--~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag-------   88 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAG-------   88 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CC-------
T ss_pred             CcccChHHHHHHHHHHHhcC--ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhcc-------
Confidence            46899999999999999853  33567799999999999999999985332      2334555543322111       


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh-CCceEEEEEeCCCCh----------hhhhhhh-CCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL-RHKKVLLLIDDVADV----------EQLRGLF-GKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~llvlDd~~~~----------~~~~~l~-~~~~~~~~~~~iiits  150 (352)
                                  .......+.....+...+ ...++++++|+++..          .+...++ +.+.  ....++|.+|
T Consensus        89 ------------~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgat  154 (268)
T d1r6bx2          89 ------------TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  154 (268)
T ss_dssp             ------------CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEE
T ss_pred             ------------CccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeC
Confidence                        111223333333334333 456789999998532          2344454 4443  4567888888


Q ss_pred             CchhHhhh-------cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          151 RDEHLLKL-------HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       151 r~~~~~~~-------~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ..+++...       .+.++.+.+++.+.+++..++....
T Consensus       155 T~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         155 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            87766443       2345789999999999999987643

>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=99.27  E-value=1.1e-11  Score=96.46  Aligned_cols=148  Identities=10%  Similarity=0.091  Sum_probs=92.6

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC------CcceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE------FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      +..|||+.|++++.+.|..+.  ..-++++|++|+|||+++..+++++...      ....+|..+....-.....    
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~----   95 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKY----   95 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCS----
T ss_pred             CCCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCc----
Confidence            568999999999999999533  3457799999999999999999986432      2344555543322211111    


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCChh---------hh-hhhhCCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADVE---------QL-RGLFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~~---------~~-~~l~~~~~~~~~~~~iiits  150 (352)
                                     ....++....+...+  ...+++|+||+++..-         +. +.+.+.+.  ....++|.+|
T Consensus        96 ---------------rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~Igat  158 (195)
T d1jbka_          96 ---------------RGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGAT  158 (195)
T ss_dssp             ---------------HHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEE
T ss_pred             ---------------cHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecC
Confidence                           112222232233222  3457999999994321         11 22222222  2456788888


Q ss_pred             CchhHhhh-------cCcccEEecCCCCHhHHHHHH
Q 045677          151 RDEHLLKL-------HRVEEVYKLEALNFDEAFRLF  179 (352)
Q Consensus       151 r~~~~~~~-------~~~~~~~~l~~l~~~e~~~ll  179 (352)
                      ..+++...       .+.++.+.+.+.+.+++..++
T Consensus       159 T~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         159 TLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CHHHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            87765443       245678999999999887654

>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=99.26  E-value=1.4e-10  Score=97.71  Aligned_cols=197  Identities=16%  Similarity=0.132  Sum_probs=107.0

Q ss_pred             CCCCCcCcccccHHHHHHHHHHhc----CC--C-CeEEEEEEcCCCCcHHHHHHHHHHHhcCCC-----cceeEeeeccc
Q 045677            4 ELEIPKELVGMESRLEKLKFLMCT----GS--N-DVRTIGIWGMGGLGKTTLARVVYDLMSHEF-----DGSSFLADVRE   71 (352)
Q Consensus         4 ~~~~~~~~vGR~~~l~~l~~~l~~----~~--~-~~~~v~I~G~~GiGKT~La~~~~~~~~~~~-----~~~~~~~~~~~   71 (352)
                      +-..|+.++||+.++++|.+++..    +.  + ...++.|+||+|+|||++++.+++.+....     ...+.+.+   
T Consensus        11 ~~~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~---   87 (287)
T d1w5sa2          11 ENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN---   87 (287)
T ss_dssp             TTCCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE---
T ss_pred             CccCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeec---
Confidence            345788999999999999887642    11  1 123456789999999999999998864331     11122221   


Q ss_pred             cccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh--CCceEEEEEeCCCCh--------hhhhhh------hC
Q 045677           72 RCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL--RHKKVLLLIDDVADV--------EQLRGL------FG  135 (352)
Q Consensus        72 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~llvlDd~~~~--------~~~~~l------~~  135 (352)
                      .... ...............................+....  .+...++++|.++..        +....+      +.
T Consensus        88 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~  166 (287)
T d1w5sa2          88 AFNA-PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP  166 (287)
T ss_dssp             GGGC-CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC
T ss_pred             cccc-cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcc
Confidence            1222 222444445555444433333344444445554444  346778888988422        111111      11


Q ss_pred             CCCCCCCCceEEEEeCchhHh-------h-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHc
Q 045677          136 KRDWFGLGSMIIITTRDEHLL-------K-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYA  204 (352)
Q Consensus       136 ~~~~~~~~~~iiitsr~~~~~-------~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~  204 (352)
                      ..........|++++..+...       . ..+....+.+++++.++..+++..++..........++.++.|++++
T Consensus       167 ~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         167 SRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             CTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             hhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHH
Confidence            111111222344444433211       1 12345688999999999999998765211111112245666676655

>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=99.22  E-value=5.4e-11  Score=96.77  Aligned_cols=185  Identities=11%  Similarity=0.141  Sum_probs=110.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-.++||.+..++.|.+|+..+  ..+.++++||+|+||||+|+.+++.+... ....++..+..+.    .. ....
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~----~~-~~~i   83 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDD----RG-IDVV   83 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSC----CS-HHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccccc----CC-ceeh
Confidence            445577999999999999999953  34557899999999999999999886543 2223333322111    11 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hH-hhhc
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HL-LKLH  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~-~~~~  159 (352)
                      .............              ...++..++|+|+++..  .....++..+......+.+++++.+. .+ ....
T Consensus        84 ~~~~~~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~  149 (224)
T d1sxjb2          84 RNQIKHFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQ  149 (224)
T ss_dssp             HTHHHHHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             hhHHHHHHHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHH
Confidence            1111111111000              01235669999999632  22333333333334566666666543 22 2223


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      .....+.+.+++.++....+...+......  ...+.++.|+..++|.+...-
T Consensus       150 sr~~~i~~~~~~~~~i~~~l~~i~~~e~~~--i~~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         150 SQCAILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHhhhcccchhhhHHHHHHHHHhcccC--CCHHHHHHHHHHcCCcHHHHH
Confidence            456789999999999999888765321111  224668899999999876543

>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=99.22  E-value=1.8e-10  Score=93.72  Aligned_cols=182  Identities=12%  Similarity=0.153  Sum_probs=109.7

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-.++||.+..++.|..|+..+  ..+.++++||+|+|||++|..+++.+... +...+...+.   +. ... ....
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~--~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~---~~-~~~-~~~~   82 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNA---SD-DRG-IDVV   82 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECT---TS-CCS-HHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecc---cc-cCC-eeee
Confidence            444567999999999999999853  34457899999999999999999886433 2222222211   11 111 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh-Hhh-hc
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH-LLK-LH  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~-~~  159 (352)
                      ...........               ....++..++|+|+++..  .....++..+......+.+++++.... +.. ..
T Consensus        83 ~~~~~~~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~  147 (227)
T d1sxjc2          83 RNQIKDFASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALL  147 (227)
T ss_dssp             HTHHHHHHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             ecchhhccccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHH
Confidence            11111111000               011234568999999533  333444444333355677777766432 222 23


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .....+.+.+++.++...++.+.+......  ..++.++.|++.++|....
T Consensus       148 sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~--i~~~~l~~i~~~s~Gd~R~  196 (227)
T d1sxjc2         148 SQCTRFRFQPLPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDMRR  196 (227)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhcccccccccccccccccccccccc--CCHHHHHHHHHHcCCcHHH
Confidence            456789999999999999998766432222  2346788899999997543

>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=99.18  E-value=6.2e-10  Score=91.18  Aligned_cols=194  Identities=16%  Similarity=0.132  Sum_probs=113.7

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQK   84 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   84 (352)
                      |..=..++|.+..++.|..++.++. -++.++|+|++|+|||++|..+++.+.......         ...... ...+.
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~---------~~~~~~-~~~~~   76 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCGV-CDNCR   76 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC---------SSCCSC-SHHHH
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccc---------cCcccc-chHHH
Confidence            3344678999999999999998532 245688999999999999999998864432100         000011 11122


Q ss_pred             HHHHHH----hcccCCCccchhhhHHHHHhh----hCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCchh
Q 045677           85 QLLSDL----LMLADNSIRNVYDGVNMIGSR----LRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDEH  154 (352)
Q Consensus        85 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~----l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~~  154 (352)
                      .+....    ...........+...+.+...    ..++.-++|||+++..  .....++..+...+.++++|++|.+..
T Consensus        77 ~i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          77 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             HHHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HHHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence            222110    000111111222222222211    1245569999999743  334455555444456778777776542


Q ss_pred             -Hhh-hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhH
Q 045677          155 -LLK-LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAV  211 (352)
Q Consensus       155 -~~~-~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i  211 (352)
                       +.. .......+.+.+++.++....+..........  ..++.++.|+..++|.+.-.
T Consensus       157 ~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~--~~~~~l~~i~~~s~Gd~R~a  213 (239)
T d1njfa_         157 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDA  213 (239)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHTTTCHHHH
T ss_pred             ccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC--CCHHHHHHHHHHcCCCHHHH
Confidence             222 22456789999999999988887765322111  23467889999999998643

>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=99.15  E-value=3.5e-10  Score=92.29  Aligned_cols=183  Identities=14%  Similarity=0.152  Sum_probs=107.8

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEeeeccccccCCCcHHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      |..-++++|.+..++.|..|+..+  ..+.++|+||+|+|||++|+.+++.+... +....+..+......     ....
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~-----~~~~   92 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG-----INVI   92 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH-----HHTT
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccc-----hhHH
Confidence            444567999999999999999954  44668899999999999999999876432 222222222111100     0000


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCch-hHhhh-c
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKL-H  159 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~-~  159 (352)
                      .........               .......++.++++|+++.  ......++..+......+.+|+++... .+... .
T Consensus        93 ~~~~~~~~~---------------~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~  157 (231)
T d1iqpa2          93 REKVKEFAR---------------TKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ  157 (231)
T ss_dssp             HHHHHHHHH---------------SCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHh---------------hhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHh
Confidence            111111000               0011124677999999953  233333433333234455666655433 22222 2


Q ss_pred             CcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhH
Q 045677          160 RVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAV  211 (352)
Q Consensus       160 ~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i  211 (352)
                      .....+.+.+.+..+....+...+.....  ....+.++.|++.++|....+
T Consensus       158 sR~~~i~~~~~~~~~~~~~l~~~~~~e~i--~i~~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         158 SRCAIFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             HTEEEEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHHHH
T ss_pred             CccccccccccchhhHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            34568999999999999988877643222  123466888999999976543

>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=99.14  E-value=1.9e-10  Score=92.25  Aligned_cols=186  Identities=18%  Similarity=0.176  Sum_probs=105.6

Q ss_pred             CCCCCCCCcCcccccHHH--HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            1 MNSELEIPKELVGMESRL--EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         1 ~~~~~~~~~~~vGR~~~l--~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      +|+.......++|...++  +.+.++....++....++|+|++|+|||.|+..+++...+.....++.. .         
T Consensus         3 ln~~~tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~-~---------   72 (213)
T d1l8qa2           3 LNPKYTLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-A---------   72 (213)
T ss_dssp             CCTTCCSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-H---------
T ss_pred             CCCCCChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec-h---------
Confidence            455666777788876665  3445555544444455889999999999999999999876655555554 1         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh---hhhhh-hhCCCCC-CCCCceEEEEeCch
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV---EQLRG-LFGKRDW-FGLGSMIIITTRDE  153 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~---~~~~~-l~~~~~~-~~~~~~iiitsr~~  153 (352)
                       ..+...+...+....      ...    +.+.+. .--+|+|||++..   ..|+. ++..+.. ...+..+|+||+..
T Consensus        73 -~~~~~~~~~~~~~~~------~~~----~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~  140 (213)
T d1l8qa2          73 -DDFAQAMVEHLKKGT------INE----FRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRH  140 (213)
T ss_dssp             -HHHHHHHHHHHHHTC------HHH----HHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             -HHHHHHHHHHHHccc------hhh----HHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCc
Confidence             223333333222111      111    111111 2238999999643   23332 2222221 13577899999854


Q ss_pred             h---------HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHH
Q 045677          154 H---------LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVD  212 (352)
Q Consensus       154 ~---------~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~  212 (352)
                      +         +.+.......+.++ .+.++..+++++.+......  ..+++++-|.+.+. ++.-++
T Consensus       141 p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~--l~~~v~~yl~~~~~-~~R~L~  204 (213)
T d1l8qa2         141 PQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLE--LRKEVIDYLLENTK-NVREIE  204 (213)
T ss_dssp             GGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCC--CCHHHHHHHHHHCS-SHHHHH
T ss_pred             chhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhcC-cHHHHH
Confidence            2         22223344677886 47777778887776433322  22366777777763 444443

>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=99.13  E-value=8.4e-10  Score=90.29  Aligned_cols=192  Identities=10%  Similarity=0.079  Sum_probs=107.8

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC--cceeEeeeccccccCCCcHHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF--DGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      |..-++++|.+..++.|..++..  ...+.++++||+|+||||+++.+++++....  ....+..+.   +... . ...
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~--~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~---~~~~-~-~~~   80 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKS--ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA---SDER-G-ISI   80 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTC--TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS---SSCC-C-HHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc--CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheec---cccc-c-chH
Confidence            44446699999999999999984  3445588999999999999999998753221  111111111   1111 1 111


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCCCCCCCceEEEEeCch-hH-hhh
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRDWFGLGSMIIITTRDE-HL-LKL  158 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~~~~~~~~iiitsr~~-~~-~~~  158 (352)
                      ............... ...    ..+........-++|+|+++..  .....+...+......+.+|+++.+. .. ...
T Consensus        81 ~~~~~~~~~~~~~~~-~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l  155 (237)
T d1sxjd2          81 VREKVKNFARLTVSK-PSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPL  155 (237)
T ss_dssp             HTTHHHHHHHSCCCC-CCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             HHHHHHHHhhhhhhh-hhH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccc
Confidence            111111111111110 000    1111222334558999999633  23333332222224556666665532 22 222


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ......+.+.+++.++...++...+......  ...+.++.|++.++|...-
T Consensus       156 ~sr~~~i~f~~~~~~~~~~~L~~i~~~e~i~--i~~~~l~~ia~~s~gd~R~  205 (237)
T d1sxjd2         156 ASQCSKFRFKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLRR  205 (237)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHHH
T ss_pred             cchhhhhccccccccccchhhhhhhhhhcCc--CCHHHHHHHHHHcCCCHHH
Confidence            2345689999999999999998876432221  2347788999999887643

>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=99.08  E-value=2.6e-10  Score=99.17  Aligned_cols=152  Identities=11%  Similarity=0.094  Sum_probs=90.5

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC------CcceeEeeeccccccCCCcHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE------FDGSSFLADVRERCDKEGSVISL   82 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l   82 (352)
                      ++.|||+.|++++.+.|....  ..-++++|++|+|||+++..+++++...      ....+|..+++..-.....    
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~--k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~----   95 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY----   95 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCC--CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCc----
Confidence            468999999999999998532  2335688999999999999999875332      2345666544332211110    


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHhhh-C-CceEEEEEeCCCChh---------hh-hhhhCCCCCCCCCceEEEEe
Q 045677           83 QKQLLSDLLMLADNSIRNVYDGVNMIGSRL-R-HKKVLLLIDDVADVE---------QL-RGLFGKRDWFGLGSMIIITT  150 (352)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~-~~~~llvlDd~~~~~---------~~-~~l~~~~~~~~~~~~iiits  150 (352)
                                     ....+..+..+...+ . ..+++|+||+++..-         +. ..|.+.+.  ....++|-+|
T Consensus        96 ---------------~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~t  158 (387)
T d1qvra2          96 ---------------RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGAT  158 (387)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEE
T ss_pred             ---------------chhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeec
Confidence                           112222232233323 2 357899999996431         11 11222222  3456788887


Q ss_pred             CchhHhhh------cCcccEEecCCCCHhHHHHHHHhhh
Q 045677          151 RDEHLLKL------HRVEEVYKLEALNFDEAFRLFCLKA  183 (352)
Q Consensus       151 r~~~~~~~------~~~~~~~~l~~l~~~e~~~ll~~~~  183 (352)
                      ..+.....      .+.++.+.+.+.+.+++..++....
T Consensus       159 T~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         159 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            77665332      2456789999999999999987654

>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=99.03  E-value=7.1e-11  Score=97.84  Aligned_cols=195  Identities=14%  Similarity=0.106  Sum_probs=101.4

Q ss_pred             CCCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC---------
Q 045677            5 LEIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK---------   75 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~---------   75 (352)
                      |..-++++|++...+.|..++.... ..+.++|+||+|+||||+|+.+++.+.......... +.......         
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~   84 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKI-DVRQFVTASNRKLELNV   84 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC-------------------CC
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCcccccccc-ccccccccccchhhhhh
Confidence            4455679999999999988887532 345578999999999999999998752221000000 00000000         


Q ss_pred             ---------------CCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--hhhhhhhCCCC
Q 045677           76 ---------------EGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--EQLRGLFGKRD  138 (352)
Q Consensus        76 ---------------~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~~~~~l~~~~~  138 (352)
                                     ... ..................       ...-.....+...++|||+++..  .....+...+.
T Consensus        85 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e  156 (252)
T d1sxje2          85 VSSPYHLEITPSDMGNND-RIVIQELLKEVAQMEQVD-------FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTME  156 (252)
T ss_dssp             EECSSEEEECCC----CC-HHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHH
T ss_pred             ccCCccceeeecccccCC-cceeeehhhhhhhhhhhh-------hhhcccccCCCceEEEeccccccccccchhhhcccc
Confidence                           000 000001110000000000       00000111234558999999753  33333333333


Q ss_pred             CCCCCceEEEEeCchh-Hh-hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          139 WFGLGSMIIITTRDEH-LL-KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       139 ~~~~~~~iiitsr~~~-~~-~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ....++++|+|+.+.. +. ........+++.+++.++..+++...+....... ..++.++.|+..+.|.+.-
T Consensus       157 ~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~-~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         157 KYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQL-ETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             HSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEE-CCSHHHHHHHHHHTTCHHH
T ss_pred             cccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCC-CcHHHHHHHHHHcCCcHHH
Confidence            3345677777765432 21 1123346789999999999998876652111111 1125677889999998754

>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=99.03  E-value=4.5e-09  Score=83.75  Aligned_cols=178  Identities=14%  Similarity=0.088  Sum_probs=103.7

Q ss_pred             cHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhc--
Q 045677           15 ESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLM--   92 (352)
Q Consensus        15 ~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--   92 (352)
                      +...++|.+.+..+. -++.++++|++|+|||++|..+++.+........         ..... ..-+..+......  
T Consensus         8 ~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~---------~~~~~-~~~~~~i~~~~~~~~   76 (207)
T d1a5ta2           8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGH---------KSCGH-CRGCQLMQAGTHPDY   76 (207)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTT---------BCCSC-SHHHHHHHHTCCTTE
T ss_pred             HHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhccccccccc---------ccccc-cchhhhhhhcccccc
Confidence            345677777777432 2466889999999999999999987632211000         00000 0011111111000  


Q ss_pred             --c---cCCCccchhhhHHHHHhhh-----CCceEEEEEeCCCC--hhhhhhhhCCCCCCCCCceEEEEeCchh-Hhhh-
Q 045677           93 --L---ADNSIRNVYDGVNMIGSRL-----RHKKVLLLIDDVAD--VEQLRGLFGKRDWFGLGSMIIITTRDEH-LLKL-  158 (352)
Q Consensus        93 --~---~~~~~~~~~~~~~~~~~~l-----~~~~~llvlDd~~~--~~~~~~l~~~~~~~~~~~~iiitsr~~~-~~~~-  158 (352)
                        .   .....-..++ +..+...+     .+++-++|||+++.  .+....++..+...+.++.+|++|.+.. +.+. 
T Consensus        77 ~~~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI  155 (207)
T d1a5ta2          77 YTLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (207)
T ss_dssp             EEECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             chhhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhh
Confidence              0   0000111111 22222222     24566999999974  4456666666666677888888777653 3332 


Q ss_pred             cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhH
Q 045677          159 HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAV  211 (352)
Q Consensus       159 ~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i  211 (352)
                      ......+.+.+++.++....+.+...       ..++.+..+++.++|.|...
T Consensus       156 ~SRc~~i~~~~~~~~~~~~~L~~~~~-------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         156 RSRCRLHYLAPPPEQYAVTWLSREVT-------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHCC-------CCHHHHHHHHHHTTTCHHHH
T ss_pred             cceeEEEecCCCCHHHHHHHHHHcCC-------CCHHHHHHHHHHcCCCHHHH
Confidence            24567899999999999999876541       12366888899999998644

>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=98.96  E-value=1.1e-09  Score=90.49  Aligned_cols=190  Identities=15%  Similarity=0.118  Sum_probs=103.1

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc---------------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT---------------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~---------------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      |..-+.++|.+..+++|.+|+..               +.+..+.++++||+|+|||++|..+++.+...    ++..+.
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~   85 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD----ILEQNA   85 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE----EEEECT
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh----hhcccc
Confidence            44457899999999999998853               22345789999999999999999999876533    222222


Q ss_pred             cccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCC-----hhhhhhhhCCCCCCCCCc
Q 045677           70 RERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVAD-----VEQLRGLFGKRDWFGLGS  144 (352)
Q Consensus        70 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~-----~~~~~~l~~~~~~~~~~~  144 (352)
                      ....    . ...+............. .....  ..........+..++++|+++.     ...+..+.....  ....
T Consensus        86 ~~~~----~-~~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~  155 (253)
T d1sxja2          86 SDVR----S-KTLLNAGVKNALDNMSV-VGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTST  155 (253)
T ss_dssp             TSCC----C-HHHHHHTGGGGTTBCCS-TTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSS
T ss_pred             ccch----h-hHHHHHHHHHHhhcchh-hhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--cccc
Confidence            1111    1 11221211111110000 00000  0111122235678999999842     122223322111  1122


Q ss_pred             eEEEEeC--ch-hHhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          145 MIIITTR--DE-HLLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       145 ~iiitsr--~~-~~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      .+++++.  .. .+....+....+.+.+.+.++....+...+......  ..++.++.|++.++|...-
T Consensus       156 ~ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~--i~~~~l~~i~~~s~GDiR~  222 (253)
T d1sxja2         156 PLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLIQTTRGDIRQ  222 (253)
T ss_dssp             CEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHTTTCHHH
T ss_pred             ccccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCC--CCHHHHHHHHHhCCCcHHH
Confidence            3444332  22 223333556789999999999999888765221111  1125578899999997633

>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=98.94  E-value=1.4e-08  Score=83.68  Aligned_cols=179  Identities=15%  Similarity=0.142  Sum_probs=103.0

Q ss_pred             CcccccHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677           10 ELVGMESRLEKLKFLMC----T-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~----~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ..+|-+...++|.+.+.    .       +-..++-++++||+|+|||++++.+++....+    ++............ 
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~----~~~i~~~~l~~~~~-   79 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKLA-   79 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE----EEEECHHHHTTSCT-
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe----EEEEEchhhccccc-
Confidence            47888988888877642    1       22345679999999999999999999876544    22222211111100 


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh-------------hhhhhhCCC--CCCCCC
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE-------------QLRGLFGKR--DWFGLG  143 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~-------------~~~~l~~~~--~~~~~~  143 (352)
                                         ......+...+.......+.+|+|||++...             ....+....  .....+
T Consensus        80 -------------------g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (258)
T d1e32a2          80 -------------------GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  140 (258)
T ss_dssp             -------------------THHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC
T ss_pred             -------------------ccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC
Confidence                               0011112222333345688999999995321             011111111  112344


Q ss_pred             ceEEEEeCchhHhh-----hcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh-HHHHH
Q 045677          144 SMIIITTRDEHLLK-----LHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA-VDVLV  215 (352)
Q Consensus       144 ~~iiitsr~~~~~~-----~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~-i~~~~  215 (352)
                      ..+|.||.......     ..++...+.++..+.++...++........... .  .....+++.|.|+-.+ |..++
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~-~--~~~~~la~~t~G~s~adl~~lv  215 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD-D--VDLEQVANETHGHVGADLAALC  215 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCT-T--CCHHHHHHHCTTCCHHHHHHHH
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccccc-c--cchhhhhhcccCCCHHHHHHHH
Confidence            45666776543211     124668899999999999999987663222111 1  2367899999886443 54443

>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=98.90  E-value=4.5e-08  Score=79.76  Aligned_cols=175  Identities=17%  Similarity=0.101  Sum_probs=100.9

Q ss_pred             CCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHH
Q 045677            7 IPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQ   83 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   83 (352)
                      .=+.+||.+..+++|..|+..   .+...+.++++||+|+|||++|+.+++.+...+.   .+. .   +.. .. ....
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~---~~~-~---~~~-~~-~~~~   77 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH---VTS-G---PVL-VK-QGDM   77 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE---EEE-T---TTC-CS-HHHH
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcc---ccc-C---ccc-cc-HHHH
Confidence            346789999999999998863   2333466889999999999999999988765431   111 1   111 11 1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhh-----h-hhhhC--------------CCCCCCCC
Q 045677           84 KQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQ-----L-RGLFG--------------KRDWFGLG  143 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~-----~-~~l~~--------------~~~~~~~~  143 (352)
                      ..++.                       ...++.++++|+++....     + ..+..              .......+
T Consensus        78 ~~~~~-----------------------~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (238)
T d1in4a2          78 AAILT-----------------------SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP  134 (238)
T ss_dssp             HHHHH-----------------------HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CC
T ss_pred             HHHHH-----------------------hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCC
Confidence            11111                       123445777787743210     1 11100              00001234


Q ss_pred             ceEEEEeCchh-Hh--hhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHHH
Q 045677          144 SMIIITTRDEH-LL--KLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVLV  215 (352)
Q Consensus       144 ~~iiitsr~~~-~~--~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~~  215 (352)
                      +.+|++|.+.. ..  ...+....+.+++.+.++...++..........  ..++.++.+++.++|.+..+....
T Consensus       135 ~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~l~~i~~~s~gd~R~ai~~l  207 (238)
T d1in4a2         135 FTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRLT  207 (238)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             eEEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch--hhHHHHHHHHHhCCCCHHHHHHHH
Confidence            45555555432 21  122445578999999999999888766332222  234668889999999877665443

>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=98.88  E-value=1.8e-08  Score=82.27  Aligned_cols=174  Identities=18%  Similarity=0.180  Sum_probs=97.7

Q ss_pred             cCcccccHHHHHHHHHHh---c-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLMC---T-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~---~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ++++|-+...+.|.+.+.   .       +...++-++++||+|+|||+||+.+++....+    ++..+...       
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~----~~~i~~~~-------   77 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP----FITASGSD-------   77 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC----EEEEEHHH-------
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC----EEEEEhHH-------
Confidence            568899988777665332   1       22334678999999999999999999876533    22222211       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCC--C
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDW--F  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~--~  140 (352)
                             +.....+      .....+...+.......|.+|+|||++...                .+..++..+..  .
T Consensus        78 -------l~~~~~g------~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  144 (247)
T d1ixza_          78 -------FVEMFVG------VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  144 (247)
T ss_dssp             -------HHHSCTT------HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             -------hhhcccc------HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence                   1111000      011112223333345688999999984210                12233322211  1


Q ss_pred             CCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          141 GLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       141 ~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      ..+..+|.||.... +.+.    .++...+.+++.+.++..++++..........   ....+.+++.|.|+.-
T Consensus       145 ~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~---~~~~~~la~~t~g~s~  215 (247)
T d1ixza_         145 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE---DVDLALLAKRTPGFVG  215 (247)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCT---TCCHHHHHHTCTTCCH
T ss_pred             CCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCcc---ccCHHHHHHHCCCCCH
Confidence            22333444555432 2222    24567899999999999999987763322211   1225677888887643

>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=98.86  E-value=1.7e-08  Score=82.79  Aligned_cols=174  Identities=14%  Similarity=0.109  Sum_probs=99.4

Q ss_pred             cCcccccHHHHHHHHHH---hc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677            9 KELVGMESRLEKLKFLM---CT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l---~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      ++++|-+...++|.+.+   ..       +...++.++++||+|+|||++|+.+++....+    ++...........  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~~--   85 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEMF--   85 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTSC--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhcc--
Confidence            57889988888876543   21       12335778999999999999999999887543    2222221111100  


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh------------hh----hhhhhCCCC--CC
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV------------EQ----LRGLFGKRD--WF  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~------------~~----~~~l~~~~~--~~  140 (352)
                                        .......+...+...-...|++|+|||++..            ..    +..++..+.  ..
T Consensus        86 ------------------~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          86 ------------------VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             ------------------CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             ------------------hhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence                              0011122223334444578899999998421            11    223332221  11


Q ss_pred             CCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCch
Q 045677          141 GLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPL  209 (352)
Q Consensus       141 ~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  209 (352)
                      ..+..+|.||.... +.+.    .++...+.+++.+.++..+++...........   ......+.+.+.|+.-
T Consensus       148 ~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~---~~~~~~la~~t~G~s~  218 (256)
T d1lv7a_         148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP---DIDAAIIARGTPGFSG  218 (256)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT---TCCHHHHHHTCTTCCH
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCc---ccCHHHHHHhCCCCCH
Confidence            23445555666432 2122    24667899999999999998887663322111   1235678888888653

>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=98.83  E-value=3.1e-08  Score=80.92  Aligned_cols=53  Identities=13%  Similarity=0.040  Sum_probs=40.5

Q ss_pred             CCcCcccccHHHHHHHHHHhc--------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            7 IPKELVGMESRLEKLKFLMCT--------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~--------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..+.+||+...++.+.+....        ...+.+-|+++||+|+|||++|+.++......
T Consensus         7 ~~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           7 IMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             CTTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             hccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            345689999888877664441        22346779999999999999999999887654

>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=98.81  E-value=9.2e-08  Score=77.90  Aligned_cols=177  Identities=18%  Similarity=0.100  Sum_probs=100.1

Q ss_pred             CCCCcCcccccHHHHHHHHHHhc---CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHH
Q 045677            5 LEIPKELVGMESRLEKLKFLMCT---GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVIS   81 (352)
Q Consensus         5 ~~~~~~~vGR~~~l~~l~~~l~~---~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (352)
                      |..=+++||-+...++|..++..   .+...+.++++||+|+|||++|+.+++.....+    ...+...    ... ..
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~----~~~~~~~----~~~-~~   75 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL----RVTSGPA----IEK-PG   75 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE----EEEETTT----CCS-HH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe----EeccCCc----ccc-ch
Confidence            44446789999999999888764   233456788999999999999999998765442    1111111    111 11


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCCh--h---h----hhhhhC-C----------CCCCC
Q 045677           82 LQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADV--E---Q----LRGLFG-K----------RDWFG  141 (352)
Q Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~--~---~----~~~l~~-~----------~~~~~  141 (352)
                      .....                     +... .+.+.++++|+++..  .   .    ++.... .          .....
T Consensus        76 ~~~~~---------------------~~~~-~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~  133 (239)
T d1ixsb2          76 DLAAI---------------------LANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLEL  133 (239)
T ss_dssp             HHHHH---------------------HHTT-CCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEEC
T ss_pred             hhHHH---------------------HHhh-ccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCC
Confidence            11111                     1111 123346778888532  1   1    111000 0          00001


Q ss_pred             CCceEEEEe-Cchh--HhhhcCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchhHHHH
Q 045677          142 LGSMIIITT-RDEH--LLKLHRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLAVDVL  214 (352)
Q Consensus       142 ~~~~iiits-r~~~--~~~~~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~i~~~  214 (352)
                      ....++.++ +...  .....+....+.+...+.++...++.........  ....+.+..|++.+.|.+.....+
T Consensus       134 ~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i--~~~~~~l~~ia~~s~gd~R~a~~~  207 (239)
T d1ixsb2         134 PRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV--RITEEAALEIGRRSRGTMRVAKRL  207 (239)
T ss_dssp             CCCEEEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC--CBCHHHHHHHHHHTTSSHHHHHHH
T ss_pred             CCEEEEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCC--ccchHHHHHHHHHcCCCHHHHHHH
Confidence            233444444 3221  1222345678899999999998887766532222  233567899999999987665443

>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=98.75  E-value=2e-08  Score=83.12  Aligned_cols=174  Identities=13%  Similarity=0.118  Sum_probs=97.0

Q ss_pred             CcccccHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCc
Q 045677           10 ELVGMESRLEKLKFLMC----T-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGS   78 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~----~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (352)
                      .++|-+...++|.+.+.    .       +-...+-++++||+|+|||+|++.++..+..+    ++.........    
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l~~----   79 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLT----   79 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHHHT----
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHHhhh----
Confidence            36677777666665442    1       22335679999999999999999999887644    23322111110    


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChh----------------hhhhhhCCCCCC--
Q 045677           79 VISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVE----------------QLRGLFGKRDWF--  140 (352)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~----------------~~~~l~~~~~~~--  140 (352)
                                    ..  .......+...+.......+.+|+|||++...                .+..++..+...  
T Consensus        80 --------------~~--~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          80 --------------MW--FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             --------------SC--TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             --------------cc--ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence                          00  01111222233333445678999999995211                123444444322  


Q ss_pred             CCCceEEEEeCchh-Hhhh----cCcccEEecCCCCHhHHHHHHHhhhcCCCCCchhHHHHHHHHHHHcCCCchh
Q 045677          141 GLGSMIIITTRDEH-LLKL----HRVEEVYKLEALNFDEAFRLFCLKAFDTYKPLEEYLELAKCFVKYASGLPLA  210 (352)
Q Consensus       141 ~~~~~iiitsr~~~-~~~~----~~~~~~~~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl~  210 (352)
                      ..+..+|.||.... +.+.    .++...+++++.+.++-.++++..... ....  .+...+.++++|.|+..+
T Consensus       144 ~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~-~~~~--~~~~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         144 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK-SPVA--KDVDLEFLAKMTNGFSGA  215 (265)
T ss_dssp             --CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTC-C------CCCCHHHHHHHCSSCCH
T ss_pred             CCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhcc-CCch--hhhhHHHHHhcCCCCCHH
Confidence            23345555665432 2222    245678999999999999999866532 1111  112356788888876543

>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=98.29  E-value=4.2e-06  Score=65.40  Aligned_cols=130  Identities=12%  Similarity=-0.005  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC---cceeEeeeccccccCCCcHHHHHHHHHHHHhcc
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF---DGSSFLADVRERCDKEGSVISLQKQLLSDLLML   93 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   93 (352)
                      +++.|..++.+  +..+.+.++|++|+|||++|..+...+....   ....++.     +.....-.+-.+.+...+...
T Consensus         2 ~~~~l~~~i~~--~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~-----~~~~~I~Id~IR~i~~~~~~~   74 (198)
T d2gnoa2           2 QLETLKRIIEK--SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID-----PEGENIGIDDIRTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHHT--CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC-----CSSSCBCHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEe-----CCcCCCCHHHHHHHHHHHhhC
Confidence            57788888884  4568899999999999999999998753332   2233332     111111022223333332211


Q ss_pred             cCCCccchhhhHHHHHhhhCCceEEEEEeCCC--ChhhhhhhhCCCCCCCCCceEEEEeCch-hHhhhc-CcccEEecCC
Q 045677           94 ADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVA--DVEQLRGLFGKRDWFGLGSMIIITTRDE-HLLKLH-RVEEVYKLEA  169 (352)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~--~~~~~~~l~~~~~~~~~~~~iiitsr~~-~~~~~~-~~~~~~~l~~  169 (352)
                      +.                 .+++-++|||+++  +.++...++..+.+.+.++.+|++|.+. .+.+.. ..+..+.+++
T Consensus        75 ~~-----------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          75 PE-----------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             CS-----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             cc-----------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCC
Confidence            11                 2445599999996  4566777777776667788877666544 333332 3455677754


Q ss_pred             C
Q 045677          170 L  170 (352)
Q Consensus       170 l  170 (352)
                      .
T Consensus       138 p  138 (198)
T d2gnoa2         138 P  138 (198)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=98.23  E-value=1.7e-05  Score=64.17  Aligned_cols=47  Identities=23%  Similarity=0.225  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .|||....++++.+.+..-......|+|+|++|+|||.+|+.+...-
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            58999999999988888633333457899999999999999987653

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.98  E-value=3.9e-05  Score=64.40  Aligned_cols=52  Identities=17%  Similarity=0.204  Sum_probs=40.3

Q ss_pred             CCcCcccccHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677            7 IPKELVGMESRLEKLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +....+|.+..++.+...+..       .+.....++++||+|+|||.||+.++..+..
T Consensus        20 L~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~   78 (315)
T d1r6bx3          20 LKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI   78 (315)
T ss_dssp             HTTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             hCCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC
Confidence            356789999999998876641       2223457889999999999999999987653

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.90  E-value=1.2e-05  Score=67.58  Aligned_cols=51  Identities=20%  Similarity=0.305  Sum_probs=38.0

Q ss_pred             cCcccccHHHHHHHHHHhc------------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677            9 KELVGMESRLEKLKFLMCT------------GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~------------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...+|.+..++.+...+..            .....+.++++||+|+|||.||+.++..+...
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~   76 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   76 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCC
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccc
Confidence            4568999998888765521            01134668899999999999999999886543

>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=97.77  E-value=6.6e-06  Score=63.40  Aligned_cols=28  Identities=29%  Similarity=0.357  Sum_probs=24.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +.|+|+|++|+|||||+.+++..+..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~   29 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            5689999999999999999999875553

>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=97.76  E-value=1.1e-05  Score=61.83  Aligned_cols=31  Identities=23%  Similarity=0.157  Sum_probs=26.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+..+|+|+|++|+||||+|+.++..+...+
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            3458899999999999999999999986544

>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=97.71  E-value=6.7e-05  Score=62.85  Aligned_cols=49  Identities=20%  Similarity=0.311  Sum_probs=37.1

Q ss_pred             cCcccccHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            9 KELVGMESRLEKLKFLMCT-------GSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~-------~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...+|.+..++.+...+..       .+....+++++||+|+|||.+|+.+++.+-
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~   78 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   78 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhc
Confidence            4578999999888775542       111223678899999999999999998873

>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=97.66  E-value=2.8e-05  Score=63.87  Aligned_cols=30  Identities=20%  Similarity=0.315  Sum_probs=25.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++.++++||+|+|||+||+.++..+...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            346779999999999999999999887544

>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=97.66  E-value=1.8e-05  Score=59.98  Aligned_cols=28  Identities=21%  Similarity=0.226  Sum_probs=24.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +++.|+|++|+|||||+..++..+..+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~~g   30 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCARG   30 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            6899999999999999999999876553

>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=97.65  E-value=1.3e-05  Score=61.86  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.|+|.|++|+||||||+.++..+.
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            47899999999999999999998764

>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=97.60  E-value=2.1e-05  Score=59.70  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++++|+|++|+||||+|+.++..+.
T Consensus         2 ~klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           2 KKLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            37899999999999999999997754

>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=97.58  E-value=1.3e-05  Score=60.32  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      +.|+|+|++|+||||+++.++..+.-
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45888899999999999999988643

>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=97.56  E-value=9.1e-05  Score=61.66  Aligned_cols=27  Identities=22%  Similarity=0.325  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++++||||+|||.||+.++..+..+
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~  150 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGK  150 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCC
Confidence            456679999999999999999997644

>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=97.56  E-value=2.4e-05  Score=58.11  Aligned_cols=23  Identities=35%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++|+|+|++|+||||+|+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            68899999999999999988754

>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=97.54  E-value=2e-05  Score=61.15  Aligned_cols=35  Identities=23%  Similarity=0.181  Sum_probs=28.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..+|+++|++|+||||+|+.++..+...+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccch
Confidence            57888999999999999999999876655444443

>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=97.52  E-value=3.3e-05  Score=58.56  Aligned_cols=28  Identities=25%  Similarity=0.375  Sum_probs=24.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ...++++|.|++|+||||+++.++..+.
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            4568999999999999999999998764

>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=97.52  E-value=7.5e-05  Score=57.86  Aligned_cols=44  Identities=23%  Similarity=0.203  Sum_probs=30.5

Q ss_pred             HHHHHHHHhc-CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           18 LEKLKFLMCT-GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        18 l~~l~~~l~~-~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      ++.|.....+ ...++-+|.|.|++|+||||||+.+...+.....
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~   51 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGI   51 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhccccc
Confidence            3444443333 2334456889999999999999999988765543

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.50  E-value=0.00027  Score=55.24  Aligned_cols=27  Identities=19%  Similarity=0.261  Sum_probs=23.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      -+|+++|.+|+||||+|+++++.+...
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            468899999999999999999877544

>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=97.49  E-value=2.8e-05  Score=59.20  Aligned_cols=26  Identities=23%  Similarity=0.377  Sum_probs=23.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++|+|.|++|+||||+|+.+++.+..
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            78999999999999999999988754

>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=97.48  E-value=0.00028  Score=54.81  Aligned_cols=37  Identities=22%  Similarity=0.189  Sum_probs=28.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ++.++++++|+.|+||||.+.+++..+..+.....++
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~li   40 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFC   40 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            3457899999999999999999988876554444443

>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=97.47  E-value=9.4e-05  Score=60.06  Aligned_cols=37  Identities=30%  Similarity=0.320  Sum_probs=31.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..+++.|+|++|+|||+|+.+++...+......+|+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            4579999999999999999999988776666667765

>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=97.46  E-value=0.00025  Score=57.50  Aligned_cols=95  Identities=20%  Similarity=0.167  Sum_probs=56.9

Q ss_pred             HHHHHh-cCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC----
Q 045677           21 LKFLMC-TGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD----   95 (352)
Q Consensus        21 l~~~l~-~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----   95 (352)
                      |-..|. .+-...+++-|+|++|+|||+|+.+++...+......+|+..-...     . .+.    +..++....    
T Consensus        48 lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~-----~-~e~----a~~~GvD~d~il~  117 (269)
T d1mo6a1          48 LDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHAL-----D-PDY----AKKLGVDTDSLLV  117 (269)
T ss_dssp             HHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCC-----C-HHH----HHHHTCCGGGCEE
T ss_pred             HHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccC-----C-HHH----HHHhCCCHHHeEE
Confidence            334443 3334568999999999999999999888776666667777522111     1 122    333322111    


Q ss_pred             CCccchhhhHHHHHhhhC-CceEEEEEeCCC
Q 045677           96 NSIRNVYDGVNMIGSRLR-HKKVLLLIDDVA  125 (352)
Q Consensus        96 ~~~~~~~~~~~~~~~~l~-~~~~llvlDd~~  125 (352)
                      ......++..+.+..... +..-+||+|.+-
T Consensus       118 ~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         118 SQPDTGEQALEIADMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             ECCSSHHHHHHHHHHHHHTTCEEEEEEECST
T ss_pred             ecCCCHHHHHHHHHHHHhcCCCCEEEEeccc
Confidence            123455565655554443 457789999983

>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=97.45  E-value=4.6e-05  Score=59.18  Aligned_cols=29  Identities=17%  Similarity=0.155  Sum_probs=24.8

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.+.+|+|.|++|+||||+|..+++...
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            34568999999999999999999997653

>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=97.45  E-value=3.2e-05  Score=58.66  Aligned_cols=25  Identities=32%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +.|+|+|++|+||||+|+.+++++.
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            3477999999999999999998764

>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=97.44  E-value=0.00033  Score=54.52  Aligned_cols=37  Identities=27%  Similarity=0.262  Sum_probs=28.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      ..+.+++++|+.|+||||.+.+++..+++... .+.+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~-kV~li   43 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGK-SVMLA   43 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTC-CEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEE
Confidence            44688999999999999999999988765543 44443

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.44  E-value=0.00033  Score=54.54  Aligned_cols=37  Identities=19%  Similarity=0.099  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..+.+++++||+|+||||.+.+++..++.......++
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~li   46 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLV   46 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            4568899999999999999988888776543333333

>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=97.40  E-value=6.7e-05  Score=57.59  Aligned_cols=28  Identities=25%  Similarity=0.410  Sum_probs=25.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++|+|.|++|+||||+++.++..+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~   29 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEG   29 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            6899999999999999999999886654

>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=97.33  E-value=4.3e-05  Score=58.10  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++|+|.|++|+||||+|+.++..+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999887654

>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=97.32  E-value=0.00053  Score=53.26  Aligned_cols=34  Identities=24%  Similarity=0.086  Sum_probs=26.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCccee
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSS   64 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~   64 (352)
                      +.++++++|++|+||||.+.+++..+..+.....
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~   42 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPL   42 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEE
Confidence            4578899999999999999999888765544333

>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=97.32  E-value=0.00083  Score=58.06  Aligned_cols=119  Identities=15%  Similarity=0.134  Sum_probs=69.3

Q ss_pred             ccccH-HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHH
Q 045677           12 VGMES-RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDL   90 (352)
Q Consensus        12 vGR~~-~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   90 (352)
                      .|-.. .++.+.+++.   ....+|+|+||.|+||||.+..+...+.......+-+.+.     ........        
T Consensus       140 LG~~~~~~~~l~~l~~---~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdP-----iE~~~~~~--------  203 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK---RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDP-----IEFDIDGI--------  203 (401)
T ss_dssp             SCCCHHHHHHHHHHHT---SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESS-----CCSCCSSS--------
T ss_pred             hcccHHHHHHHHHHHh---hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccC-----cccccCCC--------
Confidence            45443 4455555555   3448999999999999999999998875443333333211     11110000        


Q ss_pred             hcccCCCccchhhhHHHHHhhhCCceEEEEEeCCCChhhhhhhhCCCCCCCCCceEEEEeC
Q 045677           91 LMLADNSIRNVYDGVNMIGSRLRHKKVLLLIDDVADVEQLRGLFGKRDWFGLGSMIIITTR  151 (352)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~l~~~~~llvlDd~~~~~~~~~l~~~~~~~~~~~~iiitsr  151 (352)
                       ................++..++..|=+|++.++.+.+.....+..-    .-++.++||-
T Consensus       204 -~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~aa----~tGhlV~tTl  259 (401)
T d1p9ra_         204 -GQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAVQAS----LTGHLVMSTL  259 (401)
T ss_dssp             -EEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHHH----HTTCEEEEEE
T ss_pred             -CeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHHH----hcCCeEEEEe
Confidence             0000111222345667778888888899999998877665554431    1345666664

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.31  E-value=0.00053  Score=53.43  Aligned_cols=38  Identities=21%  Similarity=0.204  Sum_probs=28.6

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ...+.+++++||.|+||||.+.+++..+..+...+..+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~li   45 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLA   45 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            34567889999999999999988888775554444433

>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=97.31  E-value=7.8e-05  Score=56.80  Aligned_cols=25  Identities=36%  Similarity=0.508  Sum_probs=22.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      |+|+||+|+|||||++.++..+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7899999999999999999876544

>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=97.29  E-value=9.2e-05  Score=55.78  Aligned_cols=28  Identities=25%  Similarity=0.106  Sum_probs=24.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +++.|+|.+|+|||||+..++..++.+.
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            5788999999999999999999987664

>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=97.26  E-value=8.7e-05  Score=56.23  Aligned_cols=27  Identities=30%  Similarity=0.337  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..-.|+|.|++|+||||++..++.++.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            345688999999999999999997753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.26  E-value=6.9e-05  Score=56.49  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +++.|++|+||||+++.++..+.-.
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4455999999999999999888644

>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=97.22  E-value=0.00011  Score=57.06  Aligned_cols=27  Identities=26%  Similarity=0.251  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +..++++|.|++|+||||+|..+++.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999999999999998765

>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=97.21  E-value=0.00036  Score=56.61  Aligned_cols=84  Identities=19%  Similarity=0.172  Sum_probs=51.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccC----CCccchhhhHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLAD----NSIRNVYDGVN  106 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~  106 (352)
                      ..+++-|+|++|+|||+|+.+++...++.....+|+..-...     . .    +.+..++....    ....+.++..+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~-----~-~----~~a~~~Gvd~d~i~~~~~~~~E~~~~  125 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHAL-----D-P----VYARALGVNTDELLVSQPDNGEQALE  125 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCC-----C-H----HHHHHTTCCGGGCEEECCSSHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccC-----C-H----HHHHHhCCCchhEEEEcCCCHHHHHH
Confidence            457999999999999999999988876655556666522111     1 1    23333322111    12345566666


Q ss_pred             HHHhhhCC-ceEEEEEeCC
Q 045677          107 MIGSRLRH-KKVLLLIDDV  124 (352)
Q Consensus       107 ~~~~~l~~-~~~llvlDd~  124 (352)
                      .+...... ..-|||+|-+
T Consensus       126 ~~~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         126 IMELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHHHHTTTCCSEEEEECT
T ss_pred             HHHHHHhcCCCcEEEEecc
Confidence            55555543 4568889988

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.21  E-value=8.4e-05  Score=57.26  Aligned_cols=29  Identities=34%  Similarity=0.523  Sum_probs=24.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      +.|+|+||+|+|||||++.++.+....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            45889999999999999999988665543

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.18  E-value=0.00017  Score=57.83  Aligned_cols=47  Identities=21%  Similarity=0.126  Sum_probs=35.7

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEee
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLA   67 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~   67 (352)
                      |-+.|..+=....++.|+|++|+|||+|+.+++....++.....|+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            44445532234578999999999999999999999877766667665

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.18  E-value=0.00014  Score=57.00  Aligned_cols=30  Identities=27%  Similarity=0.271  Sum_probs=25.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ....+|+++|.+|+||||+|+.+...+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~   51 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRD   51 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            455899999999999999999999887543

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.18  E-value=0.00019  Score=55.18  Aligned_cols=28  Identities=21%  Similarity=0.341  Sum_probs=24.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++++|.|++|+||||+++.++..+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~   29 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQG   29 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            5788999999999999999999886654

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.18  E-value=7.9e-05  Score=56.46  Aligned_cols=26  Identities=31%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      .+++.|++|+||||+++.+++.+.-.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~   29 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYE   29 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            46688999999999999999887643

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.17  E-value=8.9e-05  Score=56.28  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.+.+|+++|++|+||||+|++++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45689999999999999999887654

>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=97.13  E-value=0.00031  Score=57.67  Aligned_cols=42  Identities=29%  Similarity=0.298  Sum_probs=33.8

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++..+.+.+.  ..+.++++++|-||+||||++..++..+.+..
T Consensus         7 ~~~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G   48 (279)
T d1ihua2           7 SLSALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG   48 (279)
T ss_dssp             CHHHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            4666677676  56779999999999999999999888775553

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.12  E-value=0.00012  Score=54.79  Aligned_cols=24  Identities=38%  Similarity=0.440  Sum_probs=21.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ++|.|++|+||||+++.+++.+.-
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            677899999999999999998753

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.11  E-value=0.0001  Score=56.90  Aligned_cols=27  Identities=30%  Similarity=0.458  Sum_probs=23.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .|+|.||+|+|||||++.++......|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            477999999999999999998866554

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.10  E-value=0.00038  Score=58.25  Aligned_cols=50  Identities=20%  Similarity=0.268  Sum_probs=34.5

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC-CCcceeEeee
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH-EFDGSSFLAD   68 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~-~~~~~~~~~~   68 (352)
                      .++.+.+....++...|.|+|+||+|||||+..+...+.. .....+.-.+
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavD   88 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVD   88 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecc
Confidence            3444444444566789999999999999999999987543 3444444333

>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=97.09  E-value=0.00017  Score=55.74  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+|+|.|++|+||||.|..++..+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            678999999999999999999865

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.00014  Score=55.52  Aligned_cols=29  Identities=17%  Similarity=0.424  Sum_probs=24.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFD   61 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~   61 (352)
                      ++++|+||+|+|||||++.++++....|.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~   32 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFA   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCee
Confidence            67899999999999999999877655543

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.07  E-value=0.00013  Score=57.72  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++|+|.||+|+||||+++.+++++.
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            36899999999999999999998875

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.07  E-value=0.00039  Score=58.22  Aligned_cols=41  Identities=22%  Similarity=0.219  Sum_probs=31.4

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++...+....++...|.|+|+||+|||||+..+...+....
T Consensus        42 ~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          42 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            44444444456678999999999999999999998766553

>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=97.03  E-value=0.00032  Score=59.66  Aligned_cols=32  Identities=28%  Similarity=0.177  Sum_probs=27.2

Q ss_pred             CCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           28 GSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        28 ~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +.+..+.++++||+|+|||++|..++..+...
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            34556899999999999999999999887654

>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=96.95  E-value=0.00019  Score=55.30  Aligned_cols=25  Identities=20%  Similarity=0.163  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..|+|.|++|+||||+|..+++.+.
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999987763

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.94  E-value=0.00091  Score=54.63  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...++.|+|+.|+|||||++.++-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            3478999999999999999998754

>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=96.92  E-value=0.00024  Score=54.97  Aligned_cols=25  Identities=24%  Similarity=0.212  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +++|+|.|++|+||||+|..+++..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999998764

>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=96.91  E-value=0.00026  Score=54.16  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++++|+||+|+|||||++.+..+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6889999999999999999887654

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.89  E-value=0.00024  Score=57.25  Aligned_cols=23  Identities=30%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+.|+|++|+|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            36899999999999999988864

>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=96.86  E-value=0.0012  Score=53.05  Aligned_cols=39  Identities=18%  Similarity=0.189  Sum_probs=29.4

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .|-++|..+=....++.|+|++|+|||+|+.+++.....
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            344445543345689999999999999999999986543

>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=96.85  E-value=0.00037  Score=54.68  Aligned_cols=27  Identities=22%  Similarity=0.388  Sum_probs=23.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      -+|.|.|++|+||||+++.+...+...
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            568899999999999999999887544

>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=96.83  E-value=0.00033  Score=53.35  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 045677           35 IGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |+|.|++|+||||+|..++..+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998876

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.82  E-value=0.0016  Score=53.04  Aligned_cols=36  Identities=22%  Similarity=0.212  Sum_probs=27.2

Q ss_pred             HHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           24 LMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        24 ~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +....+..+-+|.|.|+.|+|||||+..+...+.+.
T Consensus        19 ~~~~~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          19 WFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             HHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             HHhcCCCCCEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence            333344445678899999999999999998876554

>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=96.81  E-value=0.00038  Score=54.98  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|+|.||+|+||||+|+.++.++.
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            477899999999999999998864

>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=96.80  E-value=0.0055  Score=49.35  Aligned_cols=34  Identities=29%  Similarity=0.408  Sum_probs=25.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC-CcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE-FDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~-~~~~~~~   66 (352)
                      +-+.|.|.+|+|||+|+.+++....+. -...++.
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~  103 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA  103 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEE
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEE
Confidence            448899999999999999999875443 3334444

>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=96.79  E-value=0.00037  Score=53.10  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|.|++|+||||++..+++.+.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            67889999999999999998763

>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=96.76  E-value=0.00073  Score=54.30  Aligned_cols=37  Identities=24%  Similarity=0.288  Sum_probs=27.9

Q ss_pred             HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           22 KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        22 ~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      -.+|..+=+...++.|+|++|+|||+|+.+++.....
T Consensus        26 D~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~   62 (254)
T d1pzna2          26 DKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQL   62 (254)
T ss_dssp             HHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             HHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhc
Confidence            3444432235689999999999999999999987543

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.75  E-value=0.0031  Score=51.98  Aligned_cols=30  Identities=37%  Similarity=0.283  Sum_probs=25.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .+-+|.|.|++|+||||+|+.+...+.+.+
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            456788999999999999999998887653

>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=96.75  E-value=0.00043  Score=52.83  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      |+|.|++|+||||+|..++.++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            67899999999999999998763

>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=96.74  E-value=0.00034  Score=57.02  Aligned_cols=40  Identities=15%  Similarity=-0.019  Sum_probs=29.2

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      ++.+.+..- ...+-+.|.|++|+|||+|+.+++.....+.
T Consensus        32 r~ID~l~Pi-grGQr~~I~g~~g~GKT~l~~~i~~~~~~~~   71 (289)
T d1xpua3          32 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH   71 (289)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECSSSSHHHHHHHHHHHHHHHC
T ss_pred             eeeeecccc-cCCCeeeEeCCCCCCHHHHHHHHHHHHhhcC
Confidence            455555543 2335678999999999999999998765443

>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=96.71  E-value=0.0009  Score=52.47  Aligned_cols=29  Identities=14%  Similarity=0.074  Sum_probs=24.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ...++.|.|++|+|||+|+.+++......
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            45799999999999999999998775443

>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=96.71  E-value=0.00076  Score=54.93  Aligned_cols=36  Identities=22%  Similarity=0.412  Sum_probs=27.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      +.|.|+|-||+||||++..++..+.+... .+.+.++
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~-rVllID~   37 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGK-TIMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTC-CEEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCC-cEEEEec
Confidence            56888999999999999999998876543 3333333

>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=96.68  E-value=0.0005  Score=53.55  Aligned_cols=25  Identities=16%  Similarity=0.202  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+++|+||+|+|||||...+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6889999999999999999987754

>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=96.67  E-value=0.00067  Score=55.99  Aligned_cols=34  Identities=21%  Similarity=0.173  Sum_probs=27.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcce
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGS   63 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~   63 (352)
                      ..+++++++|.||+||||++..++..+.+.....
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rV   39 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRV   39 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCE
Confidence            3468999999999999999999998876654333

>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=96.65  E-value=0.00052  Score=52.75  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      -++|.|++|+||||++..++.++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            35577999999999999999765

>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=96.64  E-value=0.00056  Score=52.07  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      |+|.|++|+||||+++.++..+.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45779999999999999998753

>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=96.61  E-value=0.00062  Score=57.95  Aligned_cols=50  Identities=18%  Similarity=0.227  Sum_probs=37.4

Q ss_pred             CCcCcccccHHHHHHHHHHhc----------------------------CCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677            7 IPKELVGMESRLEKLKFLMCT----------------------------GSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus         7 ~~~~~vGR~~~l~~l~~~l~~----------------------------~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +..+.||.+...+.+...+.+                            .+-....+++.||+|+|||.||+.++..+
T Consensus        15 L~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          15 LDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             HHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hCCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            346789999998888765520                            12234558889999999999999998765

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.0016  Score=50.80  Aligned_cols=35  Identities=20%  Similarity=0.213  Sum_probs=27.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ..+|+|.|+.|+||||++..+.+.+.......++.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            36899999999999999999999886654334433

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.60  E-value=0.00087  Score=53.50  Aligned_cols=27  Identities=26%  Similarity=0.375  Sum_probs=23.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +|+|.|++|+|||||+..+.+......
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~   28 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNY   28 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhCC
Confidence            688999999999999999987765444

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.003  Score=49.08  Aligned_cols=29  Identities=34%  Similarity=0.355  Sum_probs=25.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      .++|+|-|+.|+||||++..+...+....
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~g   30 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQLG   30 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            36899999999999999999998876553

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.54  E-value=0.00079  Score=51.64  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++| |.|++|+||||++..+++++
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHHh
Confidence            3555 67999999999999999775

>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=96.54  E-value=0.00068  Score=51.46  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 045677           35 IGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++|.|++|+||||++..+++++.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999997753

>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=96.45  E-value=0.00072  Score=57.00  Aligned_cols=45  Identities=24%  Similarity=0.340  Sum_probs=32.1

Q ss_pred             cCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677            9 KELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus         9 ~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ...+|.+.....|.-..-  ..+.+-++|.|++|+|||+||+.+..-
T Consensus         7 ~~I~Gq~~~kral~laa~--~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAV--DPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHH--CGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHh--ccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            456999876665543332  112245899999999999999998864

>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=96.43  E-value=0.00095  Score=53.40  Aligned_cols=28  Identities=18%  Similarity=0.152  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ...++.|.|++|+|||+|+.+++.....
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            4589999999999999999999987543

>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=96.42  E-value=0.0013  Score=51.54  Aligned_cols=33  Identities=24%  Similarity=0.392  Sum_probs=26.3

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++.|.+++..     +..++.|.+|+|||||++.+..+
T Consensus        86 ~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcch
Confidence            6777777752     56789999999999999988643

>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=96.34  E-value=0.00069  Score=54.15  Aligned_cols=37  Identities=19%  Similarity=0.202  Sum_probs=27.0

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           20 KLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        20 ~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .|-..|..+=...+++.|+|++|+|||+|+.+++...
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3444444322345799999999999999999988653

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.33  E-value=0.00093  Score=53.03  Aligned_cols=36  Identities=19%  Similarity=0.069  Sum_probs=25.9

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           21 LKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        21 l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      |-+.+..+=....++.|+|++|+|||+|+.+++...
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~   50 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNG   50 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344444222345789999999999999999877653

>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=96.29  E-value=0.0017  Score=54.13  Aligned_cols=87  Identities=17%  Similarity=0.206  Sum_probs=51.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccCCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHhhh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDKEGSVISLQKQLLSDLLMLADNSIRNVYDGVNMIGSRL  112 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  112 (352)
                      +.++|+|+.|+||||+++.++..+..+. ..+.+.+.....-....          ......   ........+.++..+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~-rivtiEd~~El~l~~~~----------~~~~~~---~~~~~~~~~ll~~~l  232 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEE-RIISIEDTEEIVFKHHK----------NYTQLF---FGGNITSADCLKSCL  232 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTC-CEEEEESSCCCCCSSCS----------SEEEEE---CBTTBCHHHHHHHHT
T ss_pred             CCEEEEeeccccchHHHHHHhhhccccc-ceeeccchhhhhccccc----------ccceec---cccchhHHHHHHHHh
Confidence            3488999999999999999887764432 33334332221110000          000000   011123455667778


Q ss_pred             CCceEEEEEeCCCChhhhhhh
Q 045677          113 RHKKVLLLIDDVADVEQLRGL  133 (352)
Q Consensus       113 ~~~~~llvlDd~~~~~~~~~l  133 (352)
                      ...+=.+|+.++.+.+.+..+
T Consensus       233 R~~pd~iivgEiR~~ea~~~l  253 (323)
T d1g6oa_         233 RMRPDRIILGELRSSEAYDFY  253 (323)
T ss_dssp             TSCCSEEEESCCCSTHHHHHH
T ss_pred             ccCCCcccCCccCchhHHHHH
Confidence            888889999999877766544

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.26  E-value=0.00098  Score=51.38  Aligned_cols=28  Identities=29%  Similarity=0.127  Sum_probs=23.2

Q ss_pred             CCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           29 SNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        29 ~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +..+-+|+|-|..|+||||+++.+.+.+
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3445689999999999999999887654

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.25  E-value=0.0037  Score=45.78  Aligned_cols=28  Identities=32%  Similarity=0.338  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      ..-+|++.|+=|+|||||++.+++.+.-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            4568999999999999999999987643

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.25  E-value=0.0018  Score=53.27  Aligned_cols=36  Identities=22%  Similarity=0.430  Sum_probs=27.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeec
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADV   69 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~   69 (352)
                      +.|.|+|-||+||||++..++..+.+... .+.+.++
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G~-rVLlID~   38 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMGK-KVMIVGC   38 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTC-CEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEec
Confidence            45678999999999999999988765533 3444444

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=96.22  E-value=0.0077  Score=48.84  Aligned_cols=25  Identities=24%  Similarity=0.171  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+++|.|++|+|||+|+.+++..+
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhh
Confidence            4789999999999999999998775

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.22  E-value=0.0014  Score=48.32  Aligned_cols=21  Identities=29%  Similarity=0.200  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|++|+|||||+..+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998754

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.08  E-value=0.002  Score=51.32  Aligned_cols=29  Identities=21%  Similarity=0.274  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ++++|+|-|.-|+||||+++.+...+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~~   29 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPEW   29 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTTS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            35899999999999999999999876543

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.06  E-value=0.001  Score=54.10  Aligned_cols=29  Identities=21%  Similarity=0.361  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ..++|.|.|.+|+||||+++.+.+.++..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            45799999999999999999998877654

>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=96.03  E-value=0.0025  Score=55.50  Aligned_cols=77  Identities=17%  Similarity=0.222  Sum_probs=48.7

Q ss_pred             CcCcccccHHHHHHHHHHhc--------CCC----CeEEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEeeeccccccC
Q 045677            8 PKELVGMESRLEKLKFLMCT--------GSN----DVRTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFLADVRERCDK   75 (352)
Q Consensus         8 ~~~~vGR~~~l~~l~~~l~~--------~~~----~~~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (352)
                      ..+.||.+...+.|.-.+.+        ...    ...-|++.||+|+|||-||+.++..+.-.    +..+++...+..
T Consensus        13 d~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VP----Fv~~daT~fTea   88 (443)
T d1g41a_          13 DQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP----FIKVEATKFTEV   88 (443)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCC----EEEEEGGGGC--
T ss_pred             cCcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCC----EEEeecceeeec
Confidence            46789999888888766532        110    13458999999999999999999877433    334444444432


Q ss_pred             ---CCcHHHHHHHHHH
Q 045677           76 ---EGSVISLQKQLLS   88 (352)
Q Consensus        76 ---~~~~~~l~~~~~~   88 (352)
                         ...+.+++..++.
T Consensus        89 GYvG~DVesii~~L~~  104 (443)
T d1g41a_          89 GYVGKEVDSIIRDLTD  104 (443)
T ss_dssp             --CCCCTHHHHHHHHH
T ss_pred             ceeecchhHHHHHHHH
Confidence               1222555555543

>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=96.03  E-value=0.0027  Score=49.19  Aligned_cols=27  Identities=30%  Similarity=0.319  Sum_probs=23.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      +|+|.|.-|+||||+++.+...+....
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g   28 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAG   28 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            588999999999999999998886553

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.97  E-value=0.0027  Score=48.31  Aligned_cols=39  Identities=15%  Similarity=0.209  Sum_probs=30.8

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           18 LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        18 l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      +..|..+|.. .+....++++||+++|||.++..+++-+.
T Consensus        40 l~~l~~~l~~-~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          40 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcC-CCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            4556666653 46678999999999999999999887763

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=95.92  E-value=0.0046  Score=49.71  Aligned_cols=40  Identities=23%  Similarity=0.267  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           16 SRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        16 ~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+.++...+.......-.|+|.|.+|+|||||.+.++.+
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            4455666666654445567889999999999999999853

>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=95.92  E-value=0.0018  Score=50.93  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-++.|.|++|+|||||++.+.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            36899999999999999986654

>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=95.91  E-value=0.016  Score=41.27  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..+..+|+++.|+|||+++..++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            458889999999999998876654

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.90  E-value=0.0023  Score=47.63  Aligned_cols=21  Identities=19%  Similarity=0.347  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||||+..+...
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988753

>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=95.89  E-value=0.0023  Score=47.49  Aligned_cols=21  Identities=38%  Similarity=0.370  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|+|.+|+|||||++.+...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            779999999999999988764

>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=95.89  E-value=0.0035  Score=47.24  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-|+|+|.+|+|||||...+..
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4477999999999999888754

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.88  E-value=0.0024  Score=47.64  Aligned_cols=21  Identities=29%  Similarity=0.271  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999998864

>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=95.87  E-value=0.0024  Score=50.27  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.||+|+|||||++.+.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            36899999999999999998765

>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=95.86  E-value=0.0028  Score=49.48  Aligned_cols=29  Identities=28%  Similarity=0.372  Sum_probs=25.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +.++|+|-|+-|+||||++..+...+..+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            45789999999999999999999888765

>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=95.86  E-value=0.0027  Score=47.56  Aligned_cols=23  Identities=26%  Similarity=0.232  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-|+|.|++|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            66899999999999999988764

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.83  E-value=0.0025  Score=47.84  Aligned_cols=21  Identities=33%  Similarity=0.297  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999988754

>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=95.78  E-value=0.0028  Score=50.43  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+.|+|++|+|||||++.+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999998865

>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=95.78  E-value=0.0027  Score=50.20  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.++-
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            36899999999999999998875

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.78  E-value=0.0033  Score=46.78  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..-|+|.|.+|+|||+|+..+...
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            355788999999999999998753

>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=95.78  E-value=0.0027  Score=48.52  Aligned_cols=21  Identities=43%  Similarity=0.504  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~   53 (352)
                      -+|.|+|.+|+||||+|..+.
T Consensus         4 ~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            567899999999999998763

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.77  E-value=0.0014  Score=50.64  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.++.-
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            367899999999999999998763

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.0028  Score=47.27  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999998864

>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=95.76  E-value=0.0021  Score=50.83  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.+.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            36899999999999999988764

>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=95.75  E-value=0.0026  Score=50.48  Aligned_cols=23  Identities=39%  Similarity=0.622  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+.|+|++|+|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36799999999999999998875

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.73  E-value=0.004  Score=48.90  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-+++.|+|.-|+|||||++.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4588999999999999999998875

>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=95.73  E-value=0.0059  Score=45.70  Aligned_cols=33  Identities=21%  Similarity=0.220  Sum_probs=24.1

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..+..++.++  . .-|+|+|.+|+|||||+..+..
T Consensus         5 ~~~~~~~~~k--~-~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1           5 TRIWRLFNHQ--E-HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             HHHHHHHTTS--C-EEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHHhCCC--e-EEEEEECCCCCCHHHHHHHHhc
Confidence            3455555532  2 4577999999999999988765

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.73  E-value=0.0029  Score=49.90  Aligned_cols=21  Identities=19%  Similarity=0.313  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ++.|.||.|+|||||++.++-
T Consensus        26 ~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            677999999999999999886

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.73  E-value=0.0028  Score=49.02  Aligned_cols=23  Identities=30%  Similarity=0.235  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.|+|.|.+|+|||||.+.+...
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            67899999999999999999753

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.71  E-value=0.0043  Score=46.55  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=19.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..--|+|.|.+|+|||||++.+..
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhc
Confidence            334578999999999999987754

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.71  E-value=0.003  Score=46.92  Aligned_cols=21  Identities=29%  Similarity=0.232  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998864

>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=95.71  E-value=0.0026  Score=50.88  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+.|+|++|+|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999998765

>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=95.70  E-value=0.0028  Score=50.03  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.+.-
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            36899999999999999998875

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.003  Score=47.14  Aligned_cols=21  Identities=29%  Similarity=0.552  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998864

>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=95.69  E-value=0.0031  Score=48.33  Aligned_cols=25  Identities=16%  Similarity=0.389  Sum_probs=21.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ++.+.|+|.|.+|+|||||++.+..
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            3455799999999999999999874

>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=95.69  E-value=0.0045  Score=48.27  Aligned_cols=34  Identities=12%  Similarity=0.021  Sum_probs=27.6

Q ss_pred             EEEEEEcCC-CCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIWGMG-GLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~-GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +.++|+|.+ |+||||++..++..+.+......++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~i   36 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence            568899997 9999999999999987775444444

>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=95.67  E-value=0.014  Score=47.07  Aligned_cols=34  Identities=18%  Similarity=-0.017  Sum_probs=24.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      +-+.|.|.+|+|||+|+.+.......+....++.
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~  101 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQGQNVICVYV  101 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEE
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhcccCceeeee
Confidence            4477899999999999988765544444334443

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.66  E-value=0.0032  Score=47.02  Aligned_cols=21  Identities=33%  Similarity=0.249  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||||+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988754

>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=95.66  E-value=0.0029  Score=47.37  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|++|+|||++|..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            66899999999999999988754

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.65  E-value=0.0032  Score=47.04  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0034  Score=46.77  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988753

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0032  Score=47.15  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998864

>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=95.62  E-value=0.0036  Score=46.57  Aligned_cols=23  Identities=26%  Similarity=0.250  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .-|+|.|++|+|||+++..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            67899999999999999888765

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.62  E-value=0.0044  Score=46.65  Aligned_cols=25  Identities=24%  Similarity=0.298  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ....|+|.|.+|+|||||++.+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998854

>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=95.62  E-value=0.0067  Score=48.91  Aligned_cols=39  Identities=18%  Similarity=0.159  Sum_probs=30.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+..+|....+....++++|+|++|||+|+..+..-+.
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg  129 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP  129 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            345556655556678999999999999999999887763

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.61  E-value=0.0027  Score=49.81  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-++.|.||+|+|||||++.+.-
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999999999875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.0033  Score=47.03  Aligned_cols=21  Identities=29%  Similarity=0.619  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568899999999999988753

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.60  E-value=0.0058  Score=48.05  Aligned_cols=34  Identities=29%  Similarity=0.364  Sum_probs=25.4

Q ss_pred             EEEEE-EcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGI-WGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I-~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      |+|.| .|-||+||||++..++..+.+......++
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~Vlli   36 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIV   36 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEE
Confidence            45555 59999999999999998887654444444

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.58  E-value=0.0033  Score=47.16  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||+|+..+...
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34789999999999999988753

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.57  E-value=0.0034  Score=46.69  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||||+..+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.57  E-value=0.0032  Score=46.73  Aligned_cols=21  Identities=24%  Similarity=0.397  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|++|+|||||+..+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            377999999999999998764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.0051  Score=46.52  Aligned_cols=23  Identities=26%  Similarity=0.169  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --|+|.|.+|+|||+|+..+...
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35889999999999999998864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.0035  Score=46.48  Aligned_cols=21  Identities=24%  Similarity=0.216  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998753

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.55  E-value=0.0037  Score=46.90  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||+..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988753

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.53  E-value=0.0036  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            778999999999999998864

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.53  E-value=0.0039  Score=45.88  Aligned_cols=21  Identities=29%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++|.|++|+|||||+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988753

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.52  E-value=0.0038  Score=46.45  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998764

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.52  E-value=0.0037  Score=46.76  Aligned_cols=21  Identities=33%  Similarity=0.373  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .|+|.|.+|+|||||++.+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999874

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.51  E-value=0.0038  Score=48.30  Aligned_cols=23  Identities=26%  Similarity=0.203  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.|+|.|++|+|||||...+...
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            35899999999999999998763

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.004  Score=46.38  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|+|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998764

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0037  Score=46.78  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            778999999999999988764

>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=95.49  E-value=0.0039  Score=52.74  Aligned_cols=25  Identities=32%  Similarity=0.254  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++++|+|++|+|||+++..+...+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHH
Confidence            3789999999999999987766554

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0038  Score=47.42  Aligned_cols=20  Identities=35%  Similarity=0.381  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |+|.|.+|+|||||+..+..
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999988874

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.005  Score=46.31  Aligned_cols=23  Identities=35%  Similarity=0.304  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +-|+|.|.+|+|||+|+..+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34678899999999999888764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.46  E-value=0.0042  Score=46.37  Aligned_cols=21  Identities=14%  Similarity=0.272  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>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=95.45  E-value=0.0022  Score=50.93  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .+.|+|-|+.|+||||+++.+.+.+.
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            37899999999999999999887654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.41  E-value=0.0044  Score=46.51  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||+..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.40  E-value=0.0044  Score=46.96  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||+..+...
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988763

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0045  Score=46.43  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||+..+...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988763

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0045  Score=46.19  Aligned_cols=21  Identities=33%  Similarity=0.336  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.39  E-value=0.0053  Score=46.08  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -+..|.|.|.+|+|||||++.+..
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHT
T ss_pred             cccEEEEECCCCCCHHHHHHHHhC
Confidence            356799999999999999999985

>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=95.35  E-value=0.0038  Score=50.03  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-++.|.|++|+|||||++.+.-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            36899999999999999998864

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0045  Score=46.13  Aligned_cols=20  Identities=35%  Similarity=0.597  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |+|.|.+|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999988764

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.33  E-value=0.0029  Score=50.03  Aligned_cols=23  Identities=39%  Similarity=0.619  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|++|+|||||++.+.-
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            36899999999999999998875

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.32  E-value=0.0081  Score=47.30  Aligned_cols=34  Identities=29%  Similarity=0.305  Sum_probs=26.1

Q ss_pred             EEEEEE-cCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           33 RTIGIW-GMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        33 ~~v~I~-G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      ++|.|+ +-||+||||++..++..+.+.......+
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~Vlli   37 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAV   37 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            677777 7899999999999999877654443333

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=95.30  E-value=0.0051  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.347  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|++|+|||||+..+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            668899999999999988653

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.0048  Score=46.23  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=95.27  E-value=0.0053  Score=45.76  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||+|+..+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998753

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.23  E-value=0.005  Score=47.12  Aligned_cols=21  Identities=29%  Similarity=0.333  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            779999999999999998864

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.21  E-value=0.0053  Score=45.96  Aligned_cols=20  Identities=35%  Similarity=0.574  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |++.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999988764

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.20  E-value=0.0052  Score=46.61  Aligned_cols=21  Identities=29%  Similarity=0.246  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999988764

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.16  E-value=0.0055  Score=46.21  Aligned_cols=21  Identities=33%  Similarity=0.268  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||+|+..+...
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988864

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.0053  Score=45.23  Aligned_cols=21  Identities=24%  Similarity=0.259  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||++.+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998743

>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=95.16  E-value=0.0061  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .++.|+|++|+|||+|+.+++..+.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999999887753

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.10  E-value=0.0058  Score=46.60  Aligned_cols=21  Identities=29%  Similarity=0.221  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999988764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.08  E-value=0.0054  Score=46.29  Aligned_cols=21  Identities=33%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .|+|+|.+|+|||||.+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999875

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.07  E-value=0.0065  Score=45.62  Aligned_cols=21  Identities=38%  Similarity=0.406  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.05  E-value=0.0066  Score=45.23  Aligned_cols=21  Identities=29%  Similarity=0.559  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||+|+..+...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998864

>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=94.97  E-value=0.0046  Score=49.46  Aligned_cols=23  Identities=35%  Similarity=0.492  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ...+.|+|++|+|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            36899999999999999987654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.89  E-value=0.0081  Score=45.59  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |++.|.+|+|||+|+.++...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            679999999999999887643

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.88  E-value=0.0067  Score=46.39  Aligned_cols=18  Identities=33%  Similarity=0.532  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVV   52 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~   52 (352)
                      |+|.|.+|+|||+|+..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            679999999999999988

>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=94.88  E-value=0.0097  Score=44.80  Aligned_cols=22  Identities=36%  Similarity=0.398  Sum_probs=18.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      .--|+|.|.+|+|||||+..+.
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            3456799999999999998764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=94.84  E-value=0.0067  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.||.|+|||||++.+.-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999998875

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.83  E-value=0.0078  Score=46.47  Aligned_cols=21  Identities=38%  Similarity=0.477  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~   53 (352)
                      -+|.|+|..|+||||++..+.
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            468899999999999987653

>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=94.78  E-value=0.067  Score=43.07  Aligned_cols=24  Identities=25%  Similarity=0.029  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      +-+.|.|.+|+|||+|+.+++...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEeecCCCCChHHHHHHHHHhH
Confidence            556789999999999998887653

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.77  E-value=0.0088  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||+|+..+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999988764

>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=94.75  E-value=0.0095  Score=46.08  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~   53 (352)
                      -+|.|+|..|+||||++..+.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            378899999999999997653

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.74  E-value=0.006  Score=46.17  Aligned_cols=20  Identities=40%  Similarity=0.675  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |.|.|.+++|||||++.+..
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999988753

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.005  Score=45.98  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999877643

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=94.65  E-value=0.0075  Score=47.67  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.+.-
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            36889999999999999998875

>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=94.61  E-value=0.0071  Score=47.65  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..++.|.|+.|+|||||++.+.-
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999988775

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.61  E-value=0.0098  Score=45.33  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|+|.|.+|+|||+|+..+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999988655

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.58  E-value=0.0084  Score=47.93  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++.|.|+.|+|||||++.+.--
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            368899999999999999988753

>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=94.57  E-value=0.012  Score=46.47  Aligned_cols=23  Identities=26%  Similarity=0.252  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++|.|+|..|+||||+|..+...
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999988764

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.54  E-value=0.013  Score=43.73  Aligned_cols=21  Identities=29%  Similarity=0.297  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|.+|+|||||+..+..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            367899999999999988764

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.53  E-value=0.0056  Score=45.83  Aligned_cols=20  Identities=25%  Similarity=0.333  Sum_probs=8.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |+|.|.+|+|||||+..+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999988775

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=94.37  E-value=0.0075  Score=45.44  Aligned_cols=24  Identities=13%  Similarity=0.176  Sum_probs=20.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHH
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~   53 (352)
                      +...-|+|.|.+++|||||++.+.
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHh
Confidence            345778999999999999998764

>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=94.36  E-value=0.0043  Score=48.58  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      +..++.|++|+|||||++.+..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCccHHHHHHhhcc
Confidence            4556889999999999998764

>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=94.36  E-value=0.012  Score=44.46  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|+|.|.+|+|||||+..+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            478899999999999998875

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.35  E-value=0.0079  Score=45.25  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |.|.|.+|+|||||++.+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999998864

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.23  E-value=0.013  Score=45.84  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .-|++.|.+|+|||+|+..+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3478999999999999988753

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.09  E-value=0.012  Score=47.58  Aligned_cols=34  Identities=15%  Similarity=0.144  Sum_probs=26.9

Q ss_pred             HHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           22 KFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        22 ~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+.|..-.++..+|.|.|+.++|||+|++.++..
T Consensus        22 l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          22 LKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            3445544456788999999999999999998854

>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=94.03  E-value=0.016  Score=47.37  Aligned_cols=20  Identities=0%  Similarity=0.059  Sum_probs=15.7

Q ss_pred             CCceehhHHHHHHHHHHHhh
Q 045677          304 NDRLWMHDLLQEMGQQIVRR  323 (352)
Q Consensus       304 ~~~~~~H~lir~~~~~~~~~  323 (352)
                      ...|+.|+-|-+++-..++.
T Consensus       273 ~~nyRs~~~I~~~an~l~~~  292 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIAN  292 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHc
Confidence            44589999999998877764

>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=93.93  E-value=0.21  Score=38.78  Aligned_cols=44  Identities=20%  Similarity=0.140  Sum_probs=30.3

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      ....++++.+.+.  .+.....+|+|..|+|||.++...+...-..
T Consensus        60 Q~~~~~~i~~~~~--~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~  103 (233)
T d2eyqa3          60 QAQAINAVLSDMC--QPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN  103 (233)
T ss_dssp             HHHHHHHHHHHHH--SSSCCEEEEECCCCTTTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh--ccCccCeEEEcCCCCCcHHHHHHHHHHHHHc
Confidence            3344556666666  3344567799999999999998877664333

>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=93.38  E-value=0.064  Score=41.65  Aligned_cols=23  Identities=26%  Similarity=0.185  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++++|+||...||||+++.+.--
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHH
Confidence            47889999999999999987754

>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=93.35  E-value=0.0075  Score=44.29  Aligned_cols=21  Identities=29%  Similarity=0.358  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+|.|.+|+|||||++.+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998764

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.11  E-value=0.038  Score=34.65  Aligned_cols=66  Identities=15%  Similarity=0.037  Sum_probs=52.8

Q ss_pred             hhhhhhhccCCCCCCHHHHHHHHHhcCCCchhchHHHhhccceeecCCCceehhHHHHHHHHHHHh
Q 045677          257 KNIFLDVACFYKWENRDYVSKILDSCGFDPIIGISVLIEKSLLTVRENDRLWMHDLLQEMGQQIVR  322 (352)
Q Consensus       257 ~~~l~~ls~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~li~~~~~~~~~~H~lir~~~~~~~~  322 (352)
                      -+++..++--+.+.+..+++..++.+.....+.+..|.+.|+++...++.|.+=+-+-+++...++
T Consensus         8 l~IL~~~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~   73 (75)
T d1mkma1           8 FEILDFIVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLR   73 (75)
T ss_dssp             HHHHHHHHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHh
Confidence            345556666677889999999988887788999999999999999888889877766666665554

>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=93.07  E-value=0.027  Score=46.45  Aligned_cols=21  Identities=0%  Similarity=0.162  Sum_probs=16.6

Q ss_pred             CCceehhHHHHHHHHHHHhhc
Q 045677          304 NDRLWMHDLLQEMGQQIVRRQ  324 (352)
Q Consensus       304 ~~~~~~H~lir~~~~~~~~~~  324 (352)
                      +..|+.++-|.+++...++..
T Consensus       283 ~~nyRs~~~I~~~an~ll~~~  303 (318)
T d1pjra1         283 EQNYRSTKRILQAANEVIEHN  303 (318)
T ss_dssp             CBCSSSCHHHHHHHHHHHTTC
T ss_pred             CCCCCCcHHHHHHHHHHHHcC
Confidence            345889999999998887764

>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=93.05  E-value=0.024  Score=48.49  Aligned_cols=22  Identities=18%  Similarity=0.364  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      --|.|.|.+|+|||||++.+.-
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4489999999999999999873

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.00  E-value=0.041  Score=45.55  Aligned_cols=28  Identities=32%  Similarity=0.303  Sum_probs=23.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHEF   60 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~~   60 (352)
                      -.|.|-|+-|+||||+++.+.+.+..+.
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            3578899999999999999998876554

>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=92.29  E-value=0.038  Score=45.69  Aligned_cols=33  Identities=24%  Similarity=0.209  Sum_probs=25.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      .|.|-|.-|+||||+++.+.+.+..+.....++
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~   39 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLI   39 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEE
Confidence            378999999999999999998876554444443

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=91.62  E-value=0.15  Score=41.32  Aligned_cols=23  Identities=22%  Similarity=0.046  Sum_probs=16.8

Q ss_pred             EEEEEEcCCCCcHHH-HHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTT-LARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~-La~~~~~~   55 (352)
                      +.++|.|+.|+|||. ++..+...
T Consensus        10 ~~~lv~~~TGsGKT~~~l~~~~~~   33 (305)
T d2bmfa2          10 RLTIMDLHPGAGKTKRYLPAIVRE   33 (305)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHH
T ss_pred             CcEEEEECCCCCHHHHHHHHHHHH
Confidence            678899999999995 44344443

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.60  E-value=0.15  Score=38.86  Aligned_cols=47  Identities=21%  Similarity=0.104  Sum_probs=34.4

Q ss_pred             CCCcCcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677            6 EIPKELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus         6 ~~~~~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ..+..+--|+-+.+.+..++..+    + .+|.++.|.|||..+..++.+..
T Consensus        64 ~~~~~~~Lr~yQ~eav~~~~~~~----~-~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          64 YFDAEISLRDYQEKALERWLVDK----R-GCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             CCCCCCCCCHHHHHHHHHHTTTS----E-EEEEESSSTTHHHHHHHHHHHSC
T ss_pred             CCCCCCCcCHHHHHHHHHHHhCC----C-cEEEeCCCCCceehHHhHHHHhc
Confidence            34456677888888888776521    3 35788999999999888877654

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.15  E-value=0.15  Score=38.35  Aligned_cols=36  Identities=19%  Similarity=-0.032  Sum_probs=22.8

Q ss_pred             ccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           14 MESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        14 R~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |+-+.+.+..... .    . +.|++|.|+|||..+..++..
T Consensus        11 r~~Q~~~~~~~~~-~----n-~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          11 RIYQEVIYAKCKE-T----N-CLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CHHHHHHHHHGGG-S----C-EEEECCTTSCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-C----C-eEEEeCCCCcHHHHHHHHHHH
Confidence            5555555554433 1    1 568899999999876655543

>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=91.15  E-value=0.088  Score=36.05  Aligned_cols=27  Identities=7%  Similarity=-0.031  Sum_probs=23.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      .-.|+++|..|+||+++|..+...+.+
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            467889999999999999999888755

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=90.98  E-value=0.062  Score=40.04  Aligned_cols=21  Identities=43%  Similarity=0.716  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~   54 (352)
                      -|.|.|.+++|||||++.+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            488999999999999998874

>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=90.86  E-value=0.08  Score=41.19  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++|+|.|-++.|||||+..+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            66999999999999999988764

>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=90.65  E-value=0.09  Score=45.19  Aligned_cols=27  Identities=26%  Similarity=0.220  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhcCC
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMSHE   59 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~~~   59 (352)
                      +-++|.|.+|+|||+++..++.....+
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~   77 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLR   77 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhC
Confidence            448999999999999988777664433

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=90.57  E-value=0.6  Score=36.84  Aligned_cols=38  Identities=18%  Similarity=0.081  Sum_probs=26.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           17 RLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        17 ~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .++++.+-+.+  +.+-..+|.|..|+|||.++..++...
T Consensus        91 ai~ei~~d~~~--~~~m~rLL~GdvGSGKT~Va~~a~~~~  128 (264)
T d1gm5a3          91 AHQEIRNDMIS--EKPMNRLLQGDVGSGKTVVAQLAILDN  128 (264)
T ss_dssp             HHHHHHHHHHS--SSCCCCEEECCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhc--cCcceeeeeccccccccHHHHHHHHHH
Confidence            34555555553  333445699999999999997777653

>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=90.52  E-value=0.091  Score=42.10  Aligned_cols=25  Identities=32%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..|-|.|.|..|.|||||+..+...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHh
Confidence            4578999999999999999998764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=90.48  E-value=0.095  Score=41.80  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |-|.|.|..|.|||||+..+...
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Confidence            67899999999999999988754

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=89.93  E-value=0.034  Score=42.20  Aligned_cols=25  Identities=20%  Similarity=0.196  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      ++.+|+|+.|+||||++..+...+.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            3567899999999999999887653

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=89.58  E-value=0.42  Score=37.00  Aligned_cols=33  Identities=12%  Similarity=0.149  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcCCCcceeEe
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMSHEFDGSSFL   66 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~~~~~~~~~~   66 (352)
                      -++|.+|.|+|||..+...+.....+....+++
T Consensus        60 ~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv   92 (237)
T d1gkub1          60 SFAATAPTGVGKTSFGLAMSLFLALKGKRCYVI   92 (237)
T ss_dssp             CEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEE
T ss_pred             CEEEEecCCChHHHHHHHHHHHHHHhcCeEEEE
Confidence            477899999999977655544433333334444

>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=89.46  E-value=0.11  Score=44.33  Aligned_cols=24  Identities=21%  Similarity=0.337  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+.+|+|+.|+|||+++.++...+
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            577899999999999999987654

>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=89.22  E-value=0.068  Score=44.03  Aligned_cols=24  Identities=38%  Similarity=0.423  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 045677           34 TIGIWGMGGLGKTTLARVVYDLMS   57 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~~~   57 (352)
                      .|.|-|+-|+||||+++.+.+.+.
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhC
Confidence            488999999999999999876654

>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=88.71  E-value=0.069  Score=37.49  Aligned_cols=24  Identities=21%  Similarity=-0.074  Sum_probs=17.5

Q ss_pred             EEEEEEcCCCCcHHHHHHH-HHHHh
Q 045677           33 RTIGIWGMGGLGKTTLARV-VYDLM   56 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~-~~~~~   56 (352)
                      +.++|.+++|+|||..+.. +....
T Consensus         8 ~~~il~~~tGsGKT~~~~~~~~~~~   32 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFLPQILAEC   32 (140)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHHH
T ss_pred             CcEEEEcCCCCChhHHHHHHHHHHh
Confidence            5678999999999976643 33443

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.69  E-value=0.18  Score=38.20  Aligned_cols=17  Identities=29%  Similarity=0.184  Sum_probs=14.5

Q ss_pred             EEEEcCCCCcHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARV   51 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~   51 (352)
                      ++|.+|.|+|||+.+..
T Consensus        43 ~il~apTGsGKT~~a~l   59 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEM   59 (202)
T ss_dssp             EEEECSSHHHHHHHHHH
T ss_pred             EEEEcCCCCchhHHHHH
Confidence            67999999999987644

>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=88.68  E-value=0.14  Score=39.86  Aligned_cols=25  Identities=28%  Similarity=0.154  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..++++|+||...|||++++.+..-
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            3478999999999999999998764

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=88.58  E-value=0.082  Score=43.05  Aligned_cols=23  Identities=26%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ++.+|+|+.|+|||++..++...
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~~   47 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKWV   47 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHHT
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            47889999999999999887643

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=87.03  E-value=0.14  Score=41.52  Aligned_cols=18  Identities=39%  Similarity=0.649  Sum_probs=15.6

Q ss_pred             EEEEEEcCCCCcHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLAR   50 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~   50 (352)
                      .+.++.|.+|+|||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            567899999999999864

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=86.53  E-value=0.17  Score=40.95  Aligned_cols=18  Identities=39%  Similarity=0.649  Sum_probs=15.4

Q ss_pred             EEEEEEcCCCCcHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLAR   50 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~   50 (352)
                      .+.++.|.+|+|||||..
T Consensus        15 ~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             CEEEEECSTTSSHHHHHC
T ss_pred             CEEEEEccCCCCccccee
Confidence            466799999999999863

>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=85.55  E-value=0.38  Score=43.82  Aligned_cols=26  Identities=23%  Similarity=0.423  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+.|+|.|++|+|||+-++.+.+.+
T Consensus        85 ~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          85 ENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44789999999999999999888764

>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=85.35  E-value=0.29  Score=37.11  Aligned_cols=21  Identities=33%  Similarity=0.403  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~~   55 (352)
                      |.|.|-.+.|||||+..+...
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            789999999999999998765

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=85.29  E-value=0.39  Score=43.87  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+.|+|.|++|+|||.-++.+.+.
T Consensus       124 ~nQsIiisGeSGaGKTe~~k~il~y  148 (712)
T d1d0xa2         124 QNQSLLITGESGAGKTENTKKVIQY  148 (712)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEeCCCCCCHHHHHHHHHHH
Confidence            4589999999999999999888764

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=85.26  E-value=0.69  Score=36.70  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      ..-.+.|+|.+.+|||||++.+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CceEEEEEecCccchhhhhhhhhc
Confidence            345588999999999999998874

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=85.20  E-value=0.22  Score=40.46  Aligned_cols=18  Identities=39%  Similarity=0.645  Sum_probs=15.3

Q ss_pred             EEEEEEcCCCCcHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLAR   50 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~   50 (352)
                      .+.++.|.+|+|||||..
T Consensus        15 d~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          15 DVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             CEEEEECCTTSSHHHHHC
T ss_pred             CEEEEEccCCCCccccee
Confidence            456799999999999973

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=85.02  E-value=0.44  Score=44.17  Aligned_cols=27  Identities=26%  Similarity=0.279  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           30 NDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        30 ~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ...+.|+|.|++|+|||.-++.+.+.+
T Consensus       119 ~~nQ~IiisGESGaGKTe~~K~il~yL  145 (789)
T d1kk8a2         119 RENQSCLITGESGAGKTENTKKVIMYL  145 (789)
T ss_dssp             TSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            356899999999999999988887764

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=84.05  E-value=0.48  Score=43.35  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+.|+|.|++|+|||.-++.+.+.+
T Consensus        90 ~~Q~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          90 EDQSILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45889999999999999998888765

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=83.90  E-value=0.28  Score=36.33  Aligned_cols=20  Identities=25%  Similarity=0.207  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~   53 (352)
                      +++|+|.+++|||.+|.+++
T Consensus         1 iiLVtGGarSGKS~~AE~l~   20 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI   20 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEECCCCccHHHHHHHHH
Confidence            37899999999999998875

>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=83.71  E-value=0.48  Score=39.00  Aligned_cols=36  Identities=22%  Similarity=0.346  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           19 EKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        19 ~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      +.+.+.+.. .+.-|-|+|.|..|.|||||+..+...
T Consensus         5 ~~~~~lm~~-~~~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2           5 DQMRSLMDK-VTNVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             HHHHHHHHC-GGGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             HHHHHHhcC-cccCcEEEEEeCCCCcHHHHHHHHHHH
Confidence            344444443 345688999999999999999988754

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=83.58  E-value=0.47  Score=43.94  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      ..+.|+|.|++|+|||.-++.+.+.+
T Consensus       122 ~~QsIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2         122 ENQSILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44789999999999999888887764

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=82.28  E-value=0.61  Score=42.77  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           31 DVRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        31 ~~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      ..+.|+|.|++|+|||.-++.+.+.
T Consensus        93 ~~Q~IiisGeSGsGKTe~~k~il~~  117 (730)
T d1w7ja2          93 RNQSIIVSGESGAGKTVSAKYAMRY  117 (730)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4578999999999999988887764

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=82.17  E-value=0.83  Score=38.59  Aligned_cols=44  Identities=25%  Similarity=0.279  Sum_probs=33.5

Q ss_pred             ccccHH-HHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHhcC
Q 045677           12 VGMESR-LEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLMSH   58 (352)
Q Consensus        12 vGR~~~-l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~~~   58 (352)
                      -|.+.+ +++|.+.+..+   .+..+|.|.+|+|||-++..++....+
T Consensus        13 ~gDQP~aI~~l~~~l~~g---~~~q~l~GltGS~ka~~iA~l~~~~~r   57 (413)
T d1t5la1          13 QGDQPQAIAKLVDGLRRG---VKHQTLLGATGTGKTFTISNVIAQVNK   57 (413)
T ss_dssp             CTTHHHHHHHHHHHHHHT---CSEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHhcC---CCcEEEeCCCCcHHHHHHHHHHHHhCC
Confidence            455554 78888888743   255678999999999999998887654

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.01  E-value=0.5  Score=38.01  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      .+-++|+|.-+.|||||++.+...
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~   49 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCC
Confidence            455889999999999999999863

>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=81.78  E-value=0.39  Score=38.34  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      -|.|+|.|.+|||||.+.+-..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999887753

>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=81.33  E-value=0.38  Score=38.85  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Q 045677           33 RTIGIWGMGGLGKTTLARVVYDL   55 (352)
Q Consensus        33 ~~v~I~G~~GiGKT~La~~~~~~   55 (352)
                      --+.|+|.|.+|||||.+.+-..
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            34889999999999999998854

>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=81.29  E-value=0.38  Score=39.23  Aligned_cols=20  Identities=30%  Similarity=0.409  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 045677           35 IGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        35 v~I~G~~GiGKT~La~~~~~   54 (352)
                      |.|+|.|.+|||||.+.+-.
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            78999999999999998864

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=81.20  E-value=1.1  Score=35.69  Aligned_cols=42  Identities=2%  Similarity=-0.138  Sum_probs=32.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCCeEEEEEEcCCCCcHHHHHHHHHHHh
Q 045677           10 ELVGMESRLEKLKFLMCTGSNDVRTIGIWGMGGLGKTTLARVVYDLM   56 (352)
Q Consensus        10 ~~vGR~~~l~~l~~~l~~~~~~~~~v~I~G~~GiGKT~La~~~~~~~   56 (352)
                      .+-=|+-+.+.+..++..+     -.++.-+.|.|||-.+..++...
T Consensus       111 ~~~~rdyQ~~av~~~l~~~-----~~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         111 RIEPHWYQKDAVFEGLVNR-----RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             ECCCCHHHHHHHHHHHHHS-----EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHhcC-----CceeEEEcccCccHHHHHHHHHh
Confidence            4677898999999988842     24577899999998887777654

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=81.06  E-value=8.6  Score=28.41  Aligned_cols=20  Identities=25%  Similarity=0.154  Sum_probs=15.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 045677           34 TIGIWGMGGLGKTTLARVVY   53 (352)
Q Consensus        34 ~v~I~G~~GiGKT~La~~~~   53 (352)
                      -+.+.++.|+|||..+....
T Consensus        44 d~iv~a~TGsGKT~~~~l~~   63 (208)
T d1hv8a1          44 NIVAQARTGSGKTASFAIPL   63 (208)
T ss_dssp             EEEEECCSSSSHHHHHHHHH
T ss_pred             Ceeeechhcccccceeeccc
Confidence            47789999999997665444

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=81.01  E-value=0.49  Score=38.26  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHH
Q 045677           32 VRTIGIWGMGGLGKTTLARVVYD   54 (352)
Q Consensus        32 ~~~v~I~G~~GiGKT~La~~~~~   54 (352)
                      .+-++|+|.-+.|||||++.+..
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG   46 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVG   46 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHT
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhC
Confidence            45688999999999999999985

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.96  E-value=4.6  Score=30.03  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=15.8

Q ss_pred             EEEEEcCCCCcHHHH-HHHHHHHh
Q 045677           34 TIGIWGMGGLGKTTL-ARVVYDLM   56 (352)
Q Consensus        34 ~v~I~G~~GiGKT~L-a~~~~~~~   56 (352)
                      =+++..+.|+|||.- +.-+.+..
T Consensus        40 dvl~~A~TGsGKTla~~lp~l~~~   63 (207)
T d1t6na_          40 DVLCQAKSGMGKTAVFVLATLQQL   63 (207)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CeEEEeccccccccccccceeeee
Confidence            388999999999843 33344443

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.68  E-value=1.5  Score=31.28  Aligned_cols=37  Identities=16%  Similarity=0.192  Sum_probs=24.9

Q ss_pred             CceEEEEEeCCC--------ChhhhhhhhCCCCCCCCCceEEEEeCch
Q 045677          114 HKKVLLLIDDVA--------DVEQLRGLFGKRDWFGLGSMIIITTRDE  153 (352)
Q Consensus       114 ~~~~llvlDd~~--------~~~~~~~l~~~~~~~~~~~~iiitsr~~  153 (352)
                      +.-=+||||++.        +.+++..++..   .+....+|+|.|+.
T Consensus        93 ~~~dllILDEi~~Ai~~gli~~~~v~~ll~~---rp~~~evVlTGr~~  137 (157)
T d1g5ta_          93 PLLDMVVLDELTYMVAYDYLPLEEVISALNA---RPGHQTVIITGRGC  137 (157)
T ss_dssp             TTCSEEEEETHHHHHHTTSSCHHHHHHHHHT---SCTTCEEEEECSSC
T ss_pred             CccCEEeHHHHHHHHHcCCCCHHHHHHHHHh---CCCCCEEEEECCCC
Confidence            445699999982        34444444433   35678999999965