Citrus Sinensis ID: 038919

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480---
Protein Sequence
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT
Secondary Structure (PSIPRED)
ccHHHHHHHHHccccEEEEccccccccccccHHHHHHHHHccEEEEEEcccccccHHHHHHHHHHHHHHccccEEEEEEccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccccccHHHHHccccccHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHHcccccEEEEccccHHHHHccccHHHHHHHHHHHHHcccccccccccccHHHHHHHHccccEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHcccccEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccEEEEEccccccccHHHHHHHHHHHHcccccHHHHHHHHccccccHHHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccccccEEEEccccEEccHHHHHHHHHHHHHccccccccccccccccHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHccccEEcccHHccccccccHHHHHHHHHccEEEEEEcccccccHHHHHHHHHHHHHHHcccEEEEEEEEccHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccHHccccccccHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccEEccHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEEcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHccEEEEEcccccEEHHHHHHHHcHHHHEcccccccccccEcccHHHHHHHHHccc
Coil and Loop (DISEMBL)
TFISHLYTALndkgiyvfrddkqlekggsispNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYknredqifpifydveptvvrkqttsfgeaFTKHEEFFRDNIEKVQKWRHALKVVANisgwelkdskiRTESEILKELVGIESRLEKLKFLMgagcndvrmigiwgmgglgkTTLARVVYDLIShefdgssfladVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAgkrdwfgpgsriiiTTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFetqkpreeYVHLSQLVVNYAGGLPLALKVLGSflfgrpvdewtSTLErlkrepeneILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILdscgfepvIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVrrqsprepgkrsrlweEADLCHVLSQNT
Flexible Loop (DISEMBL)
tfishlytalndkgiyvFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIfpifydveptvVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVvanisgwelkdskirteSEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLrrlagkrdwfgpgsriiittrdehllKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTlerlkrepeneiLDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGrqivrrqsprepgkrsrlweeadlchvlsqnt
Low Complexity Region (SEG)
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT
Disordered region (IsUnstruct)
**ISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIV*******************LC*******
Disordered Region (DISOPRED)
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEF**********WRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQN*
Disordered Region (DISEMBL)
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVR***********RLWEEADLCHVLSQNT
Disordered Region (DISPRO)
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQN*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT
Positional Conservation
no confident homologs detected

---

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	483	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.979	0.413	0.462	1e-119
O82500	1095	Putative disease resistan	no	no	0.985	0.434	0.376	9e-93
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.968	0.359	0.369	2e-81
Q9FL92	1372	Probable WRKY transcripti	no	no	0.925	0.325	0.349	2e-69
Q9FH83	1288	Probable WRKY transcripti	no	no	0.910	0.341	0.321	1e-56
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.925	0.235	0.304	5e-56
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.929	0.278	0.298	7e-51
Q9FG91	848	Probable disease resistan	no	no	0.592	0.337	0.279	9e-18
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.296	0.403	0.335	1e-17
Q9T048	985	Disease resistance protei	no	no	0.459	0.225	0.281	2e-16

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

 Score =  429 bits (1103), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 236/510 (46%), Positives = 339/510 (66%), Gaps = 37/510 (7%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF SHLY  LNDKGI  F+DDK+LE G +I   L KAIEES+ +I+V S NYA+S WCL+
Sbjct: 26  TFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQFAIVVFSENYATSRWCLN 85

Query: 61  ELVKIVEYKNREDQ-IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           ELVKI+E K R  Q + PIFYDV+P+ VR Q  SF +AF +HE  ++D++E +Q+WR AL
Sbjct: 86  ELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKYKDDVEGIQRWRIAL 145

Query: 120 KVVANISGWELKDSKIRTESEI-------------------LKELVGIESRLEKLKFLMG 160
              AN+ G    D++ +T+++                    L+ +VGI++ LEK++ L+ 
Sbjct: 146 NEAANLKG--SCDNRDKTDADCIRQIVDQISSKLCKISLSYLQNIVGIDTHLEKIESLLE 203

Query: 161 AGCNDVRMIGIWGMGGLGKTTLARVVYDLI------SHEFDGSSFLADVKEKYDKEGSVI 214
            G N VR++GIWGMGG+GKTT+AR ++D +      S++FDG+ FL D+KE  +K G + 
Sbjct: 204 IGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKE--NKRG-MH 260

Query: 215 SLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQ-LRRLAGKRDW 273
           SLQ  L+S+LL+   N   N  DG + +  RLR KKVL+V+DD+ + +  L  LAG  DW
Sbjct: 261 SLQNALLSELLREKAN-YNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDW 319

Query: 274 FGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQL 333
           FG GSRIIITTRD+HL++ + +  ++++ AL   E+ QLF   AF  + P E +  LS  
Sbjct: 320 FGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLE 377

Query: 334 VVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEI 393
           VVNYA GLPLALKV GS L    + EW S +E +K    + I+D L+IS+DGL+  ++E+
Sbjct: 378 VVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEPKQQEM 437

Query: 394 FLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQ 453
           FLD+ACF +GE++DY+ +IL+SC      G+ +LI+KSL+ I E +++ MHDL+ +MG+ 
Sbjct: 438 FLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQDMGKY 497

Query: 454 IVRRQSPREPGKRSRLWEEADLCHVLSQNT 483
           IV  Q  ++PG+RSRLW   ++  V+S NT
Sbjct: 498 IVNFQ--KDPGERSRLWLAKEVEEVMSNNT 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|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  341 bits (874), Expect = 9e-93,   Method: Compositional matrix adjust.
 Identities = 191/507 (37%), Positives = 299/507 (58%), Gaps = 31/507 (6%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F+SHL      KGI  FRDD  +++  +I   L  AI ES+IS+++ S NYASS+WCLD
Sbjct: 25  NFLSHLLKEFESKGIVTFRDD-HIKRSHTIGHELRAAIRESKISVVLFSENYASSSWCLD 83

Query: 61  ELVKIVEYKNRED-QIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL++I++ K  +  ++ P+FY V+P+ +RKQT  FG +F   E       E+   WR AL
Sbjct: 84  ELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKFGMSFL--ETCCGKTEERQHNWRRAL 141

Query: 120 KVVANISG-----WELKDSKIRT------------ESEILKELVGIESRLEKLKFLMGAG 162
              ANI G     W+ +  KI T             S    +LVG+E+ + K++ L+   
Sbjct: 142 TDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRDFNDLVGMEAHIAKMESLLCLE 201

Query: 163 CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY-----DKEGSVISLQ 217
              VR++GIWG  G+GKTT+AR +Y+     F+ S F+ +V+E Y     D  G  + LQ
Sbjct: 202 SQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQ 261

Query: 218 KQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPG 277
           ++ +S LL   D  +R+    +  I  RL+ +KVL+++DDV ++EQL+ LA +  WFG  
Sbjct: 262 QRFLSKLLDQKDLRVRH----LGAIEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNK 317

Query: 278 SRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNY 337
           SRI++TT+++ LL  H +  ++++   +  EA  +FC  AF+   P ++  HL+      
Sbjct: 318 SRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAIEFTTL 377

Query: 338 AGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDV 397
           AG LPLAL+VLGSF+ G+  +EW  +L  LK   + E+  +L++ +DGL + EK++FL +
Sbjct: 378 AGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHI 437

Query: 398 ACFFKGEKRDYVSKILDSCGFEPV-IGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVR 456
           AC F G+  +Y+ +++ +     V  G+ VL +KSL+   E+ R+ MH LL ++G+++VR
Sbjct: 438 ACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVR 497

Query: 457 RQSPREPGKRSRLWEEADLCHVLSQNT 483
           +QS  EPGKR  L    + C VLS NT
Sbjct: 498 KQSIYEPGKRQFLMNAKETCGVLSNNT 524

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 =  303 bits (776), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 186/504 (36%), Positives = 291/504 (57%), Gaps = 36/504 (7%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           +F+SHL   L  K I  F DD ++E+  SI P LL AI+ESRI+I++ S+NYASSTWCL+
Sbjct: 26  SFLSHLLKELRGKAI-TFIDD-EIERSRSIGPELLSAIKESRIAIVIFSKNYASSTWCLN 83

Query: 61  ELVKIVE-YKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIE-KVQKWRHA 118
           ELV+I + Y N    + PIF+ V+ + V+KQT  FG+ F   EE  +   E + Q W+ A
Sbjct: 84  ELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEFGKVF---EETCKAKSEDEKQSWKQA 140

Query: 119 LKVVANISGWELKD----------------SKIRTESEILKELVGIESRLEKLKFLMGAG 162
           L  VA ++G++L+                  K  T S+   +LVGIE+ +E +K ++   
Sbjct: 141 LAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTPSDDFGDLVGIENHIEAIKSVLCLE 200

Query: 163 CNDVR-MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA-DVKEKYDKEGSVISLQKQL 220
             + R M+GIWG  G+GK+T+ R +Y  +S +F   +F+        D  G  +  +K+L
Sbjct: 201 SKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITYKSTSGSDVSGMKLRWEKEL 260

Query: 221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRI 280
           +S++L   D  I +      ++ +RL+Q+KVL+++DDV  +E L+ L GK +WFG GSRI
Sbjct: 261 LSEILGQKDIKIEH----FGVVEQRLKQQKVLILLDDVDSLEFLKTLVGKAEWFGSGSRI 316

Query: 281 IITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG 340
           I+ T+D  LLK H ++ ++++E  +   A  + C  AF    P +++  L+  V   AG 
Sbjct: 317 IVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAFEVAKLAGN 376

Query: 341 LPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACF 400
           LPL L VLGS L GR  + W   + RL+     +I+  L++S+D L + ++++FL +AC 
Sbjct: 377 LPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRVSYDRLHQKDQDMFLYIACL 436

Query: 401 FKGEKRDYVSKIL-DSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQS 459
           F G +  YV  +L D+ GF       +L EKSL+ I     + MH+LL ++GR+I R +S
Sbjct: 437 FNGFEVSYVKDLLKDNVGFT------MLTEKSLIRITPDGYIEMHNLLEKLGREIDRAKS 490

Query: 460 PREPGKRSRLWEEADLCHVLSQNT 483
              PGKR  L    D+  V+++ T
Sbjct: 491 KGNPGKRRFLTNFEDIHEVVTEKT 514

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

 Score =  263 bits (672), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 169/484 (34%), Positives = 271/484 (55%), Gaps = 37/484 (7%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           +F+SHL  AL  KG+    +D  ++   S+S      +E +R+S+++L  N   S   LD
Sbjct: 19  SFVSHLSKALQRKGV----NDVFIDSDDSLSNESQSMVERARVSVMILPGNRTVS---LD 71

Query: 61  ELVKIVEYKNREDQIF-PIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           +LVK+++ +  +DQ+  P+ Y V     R   T +  A          + +      H+ 
Sbjct: 72  KLVKVLDCQKNKDQVVVPVLYGV-----RSSETEWLSAL---------DSKGFSSVHHSR 117

Query: 120 KVVANISGWELKDSKIRTESEIL--KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGL 177
           K     S  +L    +R   E L   E +GI S+L +++ ++     D+R +GIWGM G+
Sbjct: 118 K---ECSDSQLVKETVRDVYEKLFYMERIGIYSKLLEIEKMINKQPLDIRCVGIWGMPGI 174

Query: 178 GKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYD 237
           GKTTLA+ V+D +S EFD   F+ D  +   ++G    L++Q + +     +        
Sbjct: 175 GKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYCLLEEQFLKE-----NAGASGTVT 229

Query: 238 GINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEE 297
            ++++  RL  K+VL+V+DDV     +    G  DWFGP S IIIT++D+ + +L RV +
Sbjct: 230 KLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQ 289

Query: 298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFG--R 355
           +++++ L   EA QLF L A       +    +S  V+ YA G PLAL + G  L G  R
Sbjct: 290 IYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKR 349

Query: 356 PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDS 415
           P +   + L +LK  P    +D ++ S+D L + EK IFLD+ACFF+GE  DYV ++L+ 
Sbjct: 350 PPEMEIAFL-KLKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEG 408

Query: 416 CGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADL 475
           CGF P +GI VL+EKSL+TI E +R+ MH+L+ ++GRQI+ R++ R+  +RSRLWE   +
Sbjct: 409 CGFFPHVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQIINRET-RQTKRRSRLWEPCSI 466

Query: 476 CHVL 479
            ++L
Sbjct: 467 KYLL 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|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  220 bits (561), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 161/501 (32%), Positives = 268/501 (53%), Gaps = 61/501 (12%)

Query: 1   TFISHLYTALNDKGI-----------YVFRDDKQLEKGGSISPNLLKAIEESRISIIVLS 49
           +F+SHL  AL  KGI            +F++ +               IE++ +S++VL 
Sbjct: 22  SFVSHLSEALRRKGINNVVVDVDIDDLLFKESQ-------------AKIEKAGVSVMVLP 68

Query: 50  RNYASSTWCLDELVKIVEYK--NREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRD 107
            N   S   LD+  K++E +  N++  +  + Y    +++R Q  S        E  FR 
Sbjct: 69  GNCDPSEVWLDKFAKVLECQRNNKDQAVVSVLYG--DSLLRDQWLS--------ELDFR- 117

Query: 108 NIEKVQKWRHALKVVANISGWELKDSKIRT--ESEILKELVGIESRLEKLKFLMGAGCND 165
            + ++ + R         S   L +  +R   E+      +GI S+L +++ ++      
Sbjct: 118 GLSRIHQSR------KECSDSILVEEIVRDVYETHFYVGRIGIYSKLLEIENMVNKQPIG 171

Query: 166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI--SD 223
           +R +GIWGM G+GKTTLA+ V+D +S  FD S F+ D  +   ++G    L++QL+  +D
Sbjct: 172 IRCVGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYCLLEEQLLPGND 231

Query: 224 LLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIIT 283
              +  +S+R+          RL  K+VL+V+DDV +           DW GPGS IIIT
Sbjct: 232 ATIMKLSSLRD----------RLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIIT 281

Query: 284 TRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVH-LSQLVVNYAGGLP 342
           +RD+ +  L  + ++++++ L   EA QLF L A   +   E+ +  LS  V+NYA G P
Sbjct: 282 SRDKQVFCLCGINQIYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYANGNP 341

Query: 343 LALKVLGSFLFGRP-VDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF 401
           LA+ V G  L G+  + E  +   +LKR P  +I+D  + ++D L + EK IFLD+ACFF
Sbjct: 342 LAISVYGRELKGKKKLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFF 401

Query: 402 KGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPR 461
           +GE  +YV ++L+ CGF P + I VL++K L+TI E +R+W+H L  ++GR+I+  ++  
Sbjct: 402 QGENVNYVIQLLEGCGFFPHVEIDVLVDKCLVTISE-NRVWLHKLTQDIGREIINGET-V 459

Query: 462 EPGKRSRLWEEADLCHVLSQN 482
           +  +R RLWE   + ++L  N
Sbjct: 460 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|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  219 bits (557), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 152/500 (30%), Positives = 264/500 (52%), Gaps = 53/500 (10%)

Query: 2    FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
            FISHL  +L  +GI V+    +++           A+ + R+ IIVL+  Y  S      
Sbjct: 684  FISHLRASLCRRGISVYEKFNEVD-----------ALPKCRVLIIVLTSTYVPSN----- 727

Query: 62   LVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALK 120
            L+ I+E+++ ED++ +PIFY + P         F      +E F+  +  K  KW+ ALK
Sbjct: 728  LLNILEHQHTEDRVVYPIFYRLSPY-------DFVCNSKNYERFYLQDEPK--KWQAALK 778

Query: 121  VVANISGWELKDSKIRTESEILKELV----------------GIESRLEKLKFLMGAGCN 164
             +  + G+ L D   ++ESE++ E+V                G++ ++E++  L+     
Sbjct: 779  EITQMPGYTLTD---KSESELIDEIVRDALKVLCSADKVNMIGMDMQVEEILSLLCIESL 835

Query: 165  DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDL 224
            DVR IGIWG  G+GKTT+A  ++  IS +++    L D+ ++ + +G   ++++  +S++
Sbjct: 836  DVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGH-DAVRENFLSEV 894

Query: 225  LKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITT 284
            L++  + IR      + +  RL++K++L+++DDV     +    G  ++FGPGSRII+T+
Sbjct: 895  LEVEPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTS 954

Query: 285  RDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA 344
            R+  +  L +++ V++++ L   ++  L      +     E Y  LS  +V ++ G P  
Sbjct: 955  RNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVKFSNGNPQV 1014

Query: 345  LKVLGSFLFGRPVD-EWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKG 403
            L+ L S      +D EW    + +K      I  I + S  GL + E+ IFLD+ACFF  
Sbjct: 1015 LQFLSS------IDREWNKLSQEVKTTSPIYIPGIFEKSCCGLDDNERGIFLDIACFFNR 1068

Query: 404  EKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREP 463
              +D V+ +LD CGF   +G   L++KSLLTI + + + M   +   GR+IVR++S   P
Sbjct: 1069 IDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGREIVRQESADRP 1128

Query: 464  GKRSRLWEEADLCHVLSQNT 483
            G RSRLW    + HV   +T
Sbjct: 1129 GDRSRLWNADYIRHVFINDT 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 =  201 bits (512), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 148/495 (29%), Positives = 260/495 (52%), Gaps = 46/495 (9%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEE-SRISIIVLSRNYASSTWCL 59
           + +SHL  AL  +GI VF D   L++    S    + + + +R+ ++V+S          
Sbjct: 31  SLVSHLSAALRREGISVFVDACGLQETKFFSIKQNQPLTDGARVLVVVISDEVEFYDPWF 90

Query: 60  DELVKIVE-YKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHA 118
            + +K+++ ++N    + P+FY V+       T  +G A                 W  A
Sbjct: 91  PKFLKVIQGWQNNGHVVVPVFYGVDSL-----TRVYGWA---------------NSWLEA 130

Query: 119 LKVVANISGWELKDSKIRTESEILKELV-------------GIESRLEKLKFLMGAGCND 165
            K+ ++ S  ++  + + T+SE+++E+V             GI +RL +++ L+     D
Sbjct: 131 EKLTSHQS--KILSNNVLTDSELVEEIVRDVYGKLYPAERVGIYARLLEIEKLLYKQHRD 188

Query: 166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLL 225
           +R IGIWGM G+GKTTLA+ V++ +S ++D S F+ +  E + KEG +  L K+ I  +L
Sbjct: 189 IRSIGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEG-LHRLLKERIGKIL 247

Query: 226 KLADNSIRNVYDGINMIGR-RLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITT 284
           K  +  I + Y     + R +L  K++L+V+DDV           + DWFG GS IIIT+
Sbjct: 248 K-DEFDIESSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITS 306

Query: 285 RDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA 344
            D+ +    ++ +++ ++ L   EA QLF    F   +P +    LS  V++Y  G PLA
Sbjct: 307 VDKQVFAFCQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLA 366

Query: 345 LKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGE 404
           L + G  L G+  +  T+  E LK  P  +I D+L+ ++  L + EK I LD+A FFKGE
Sbjct: 367 LSIYGRELMGKKSEMETAFFE-LKHCPPLKIQDVLKNAYSALSDNEKNIVLDIAFFFKGE 425

Query: 405 KRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPG 464
             +YV ++L+   + P + I VL++K +LTI E + + M++L+ +  ++I       E  
Sbjct: 426 TVNYVMQLLEESHYFPRLAIDVLVDKCVLTISE-NTVQMNNLIQDTCQEIFN----GEIE 480

Query: 465 KRSRLWEEADLCHVL 479
             +R+WE + + ++L
Sbjct: 481 TCTRMWEPSRIRYLL 495

Arabidopsis thaliana (taxid: 3702)

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

 Score = 92.0 bits (227), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 89/318 (27%), Positives = 155/318 (48%), Gaps = 32/318 (10%)

Query: 164 NDVRMIGIWGMGGLGKTTLARVVYDL---ISHEFDGSSFLADVKEKYDKEGSVISLQKQL 220
           +++R +G++GMGG+GKTTL   + +    +  EFD   ++  V + +  EG    +Q Q+
Sbjct: 170 DEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVV-VSKDFQLEG----IQDQI 224

Query: 221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRI 280
           +  L    +          ++I   L++KK +L++DD+     L ++         GS+I
Sbjct: 225 LGRLRPDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSKI 284

Query: 281 IITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFE-TQKPREEYVHLSQLVVNYAG 339
           + TTR + + K  + ++  K++ L+ DEA++LF L   +   +  ++   L+++V     
Sbjct: 285 VFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCH 344

Query: 340 GLPLALKVLGSFLFGR-PVDEWTSTLERLKREP------ENEILDILQISFDGLKEAE-K 391
           GLPLAL V+G  +  +  V EW   +  L          E  IL IL+ S+D LK  E K
Sbjct: 345 GLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIK 404

Query: 392 EIFLDVACF---FKGEKRDYV-----------SKILDSCGFEPVIGIGVLIEKSLLTICE 437
             FL  + F   F+ EK   +           ++  D    +    IG+L+   LL  CE
Sbjct: 405 LCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLLIECE 464

Query: 438 -SDRLWMHDLLLEMGRQI 454
            +D++ MHD++ EM   I
Sbjct: 465 LTDKVKMHDVIREMALWI 482

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE9|P2A08_ARATH Protein PHLOEM PROTEIN 2-LIKE A8 OS=Arabidopsis thaliana GN=PP2A8 PE=2 SV=1

 Score = 92.0 bits (227), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/146 (33%), Positives = 84/146 (57%), Gaps = 3/146 (2%)

Query: 2   FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
           F+S L  A+ +  I VF D  ++   G+   NL   I+ESR+++++ S++Y SS WCLDE
Sbjct: 29  FLSFLEPAMREANINVFIDKDEVV--GTDLVNLFVRIQESRVAVVIFSKDYTSSEWCLDE 86

Query: 62  LVKIVEYKNRED-QIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALK 120
           L +I +  N+      PIFY + P+ V +    FG+ F   +E ++++ E+ QKW+ AL+
Sbjct: 87  LAEIKDCINQGGLNAIPIFYKLAPSSVLELKGGFGDTFRVLKEKYKNDPERTQKWQEALE 146

Query: 121 VVANISGWELKDSKIRTESEILKELV 146
            +  + G  L +   R E E + E++
Sbjct: 147 SIPKLKGLRLAEKSDRNEREFMNEMI 172

Arabidopsis thaliana (taxid: 3702)

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

 Score = 87.8 bits (216), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 75/266 (28%), Positives = 128/266 (48%), Gaps = 44/266 (16%)

Query: 160 GAGCNDVRMIGIWGMGGLGKTTLAR-----------------VVYDLISHEFDGSSFLAD 202
           G      + IG+WGMGG+GKTTL R                 V++ ++S EFD       
Sbjct: 158 GLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQ 217

Query: 203 VKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE 262
           + E+ D       +  Q+     KLA    R +Y G+      ++++K LL++DDV    
Sbjct: 218 IAERLD-------IDTQMEESEEKLA----RRIYVGL------MKERKFLLILDDVWKPI 260

Query: 263 QLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQK 322
            L  L   R     GS++I+T+R   + +  + +   +++ L  ++A++LFC  A +   
Sbjct: 261 DLDLLGIPRTEENKGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVV- 319

Query: 323 PREEYVH-LSQLVVNYAGGLPLALKVLGSFLFGRP-VDEWTSTLERLKRE-P-----ENE 374
            R ++V  +++ V    GGLPLA+  +G+ + G+  V  W   L +L +  P     E +
Sbjct: 320 -RSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPWIKSIEEK 378

Query: 375 ILDILQISFDGLKEAEKEIFLDVACF 400
           I   L++S+D L++  K  FL  A F
Sbjct: 379 IFQPLKLSYDFLEDKAKFCFLLCALF 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	483
255547494	1082	TMV resistance protein N, putative [Rici	0.993	0.443	0.526	1e-140
255547496	1097	ATP binding protein, putative [Ricinus c	0.995	0.438	0.522	1e-137
255579570	1116	TMV resistance protein N, putative [Rici	0.989	0.428	0.525	1e-136
37781280	1136	nematode resistance-like protein [Solanu	0.989	0.420	0.499	1e-134
37781226	1136	nematode resistance protein [Solanum tub	0.989	0.420	0.495	1e-133
356560337	1289	PREDICTED: TMV resistance protein N-like	0.985	0.369	0.488	1e-133
37781356	1136	nematode resistance-like protein [Solanu	0.989	0.420	0.493	1e-132
37781278	1121	nematode resistance-like protein [Solanu	0.989	0.426	0.493	1e-132
224130518	1121	tir-nbs-lrr resistance protein [Populus	0.995	0.429	0.528	1e-131
359493208	1695	PREDICTED: TMV resistance protein N-like	0.983	0.280	0.488	1e-130

>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 =  506 bits (1302), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 266/505 (52%), Positives = 348/505 (68%), Gaps = 25/505 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPN-LLKAIEESRISIIVLSRNYASSTWCL 59
            F SHLY AL  KG+  F+DD++LE  G++S   + KAI++S ISI++ SRN ASST CL
Sbjct: 24  NFTSHLYAALCQKGVITFKDDQELESRGTLSDQEIFKAIQDSSISIVIFSRNSASSTRCL 83

Query: 60  DELVKIVE-YKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHA 118
           DELV+I E  K +   + P+FY V+P  VRKQT  FGE+F K+E+ F++NI KVQ+WR A
Sbjct: 84  DELVEIFECMKTKGQNVLPVFYSVDPAEVRKQTGRFGESFAKYEKLFKNNIGKVQQWRAA 143

Query: 119 LKVVANISGWELKD---------------SKIRTESEIL----KELVGIESRL-EKLKFL 158
              +AN+SGW+ ++                K+R  S       K  VG+ SRL E +K+L
Sbjct: 144 ATGMANLSGWDTQNRHESELIEEIVEEVLKKLRKSSHRFSSASKNFVGMNSRLNEMMKYL 203

Query: 159 MGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK 218
                +DVR +GI GMGG+GKTT+AR VY  +S EF+GS FLA+V+E  +K    +SLQ+
Sbjct: 204 GKRESDDVRFVGICGMGGIGKTTIARAVYAELSSEFEGSCFLANVREVEEKNS--LSLQE 261

Query: 219 QLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGS 278
           QL+S+ L     ++ +++ G N I  RL  KKVL+++DDV H+EQL+ LAG  DWFG GS
Sbjct: 262 QLLSETLMERKITVWDIHAGRNEIKNRLSHKKVLIILDDVNHLEQLKSLAGMSDWFGNGS 321

Query: 279 RIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA 338
           RIIITTRDEHLL  H VE ++++  L +DEA +LF LKAF+   P ++YV LS   VNYA
Sbjct: 322 RIIITTRDEHLLLCHGVERIYRVGGLNHDEALRLFSLKAFKNDYPADDYVELSNHFVNYA 381

Query: 339 GGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVA 398
            GLPLAL VLGS L+GR ++EW S L+RLK  P   ILD L ISF+GL+E EK++FLD+A
Sbjct: 382 NGLPLALDVLGSCLYGRSINEWQSALDRLKEIPNKRILDKLYISFEGLQEIEKKVFLDIA 441

Query: 399 CFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQ 458
           CFFKGE + YV K+L+SCGF   IGI VL+ KSL+TI  +DR+WMHDLL EMGR IVRR 
Sbjct: 442 CFFKGEDKHYVVKVLESCGFYAEIGIRVLLSKSLITI-TNDRIWMHDLLQEMGRDIVRRS 500

Query: 459 SPREPGKRSRLWEEADLCHVLSQNT 483
              EPG+RSRLW   D+ HVLS +T
Sbjct: 501 CYEEPGRRSRLWLYKDVSHVLSNDT 525

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 =  495 bits (1275), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 263/503 (52%), Positives = 354/503 (70%), Gaps = 22/503 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F SHLY AL  KG+  FRDD++LE+G +IS  LL+AI  S+I++IV SR+YASS+WCLD
Sbjct: 26  NFTSHLYAALCQKGVITFRDDEELERGKTISQALLQAIHGSKIAVIVFSRDYASSSWCLD 85

Query: 61  ELVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL +I + +  + QI  P+F +V P  VRKQ   FG+AF KHE  F+++++KVQ+WR A+
Sbjct: 86  ELAEIHKCRKEKGQIVMPVFCNVNPYEVRKQAAGFGKAFAKHELRFKNDVQKVQRWRAAI 145

Query: 120 KVVANISGWELKD---------------SKIRT---ESEILKELVGIESRLEKLKFLMGA 161
             +AN++GW+  D               SK+R    ES   K  VG+ SRL ++   +  
Sbjct: 146 SELANLAGWDSLDRHESELIQEIVKEVLSKLRKTSLESSAAKNFVGMNSRLVEMSMCLDM 205

Query: 162 G-CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL 220
           G  +DV+ IGI GMGG+GKTT+AR V++ +S +F+GSSFLA+V+E  +K G ++ LQKQL
Sbjct: 206 GQLDDVQFIGICGMGGIGKTTIARFVHEELSSQFEGSSFLANVREVEEKRG-LVHLQKQL 264

Query: 221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRI 280
           +S++L   + +I N + G+  I  RL  K+VL+++DDV  ++QL+ LAG  DWFG GSRI
Sbjct: 265 LSEILLDRNITICNAFGGMTEISNRLAHKRVLIILDDVNQLDQLKMLAGMHDWFGKGSRI 324

Query: 281 IITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG 340
           I+T+RDEHLLK H V++++++E L  DEA  LFCLKAF    P E+++ LS   VNY  G
Sbjct: 325 IVTSRDEHLLKCHGVDKIYRVEGLGRDEALHLFCLKAFRNDHPIEDFLELSNQFVNYCNG 384

Query: 341 LPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACF 400
           LPLAL V GSFLFG+ + EW S L+RLK  P  EILD L ISFDGL+E EK++FLD+ACF
Sbjct: 385 LPLALDVFGSFLFGKSLSEWRSALDRLKEIPNQEILDKLNISFDGLEEMEKKLFLDIACF 444

Query: 401 FKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSP 460
           F GE RDYV ++LDSCG  P  GI VL+ KSL+TI + +R+WMHDLL E+GR IVRR+S 
Sbjct: 445 FNGEDRDYVYEVLDSCGLYPDFGISVLVSKSLITISK-ERIWMHDLLQELGRDIVRRESQ 503

Query: 461 REPGKRSRLWEEADLCHVLSQNT 483
            EPGKRSRLW   D+ HVLS +T
Sbjct: 504 EEPGKRSRLWLYKDIRHVLSNDT 526

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 =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 266/506 (52%), Positives = 361/506 (71%), Gaps = 28/506 (5%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F SHLY AL  KGI  F+DD+QLE+G +IS  L+KAI  S+I +I+ SRNYA S WCL+
Sbjct: 25  NFTSHLYAALRQKGINAFKDDRQLERGKTISQELVKAIRASKILMIIFSRNYAFSRWCLE 84

Query: 61  ELVKIVE-YKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           E V+I E  K     + P+FY+V P  VRKQT  FG+AF +H+  FR+N+  VQ+WR AL
Sbjct: 85  EAVEIAECAKGNGQMVVPVFYNVNPNEVRKQTGDFGKAFGEHQLRFRNNLLTVQRWRLAL 144

Query: 120 KVVANISGWELKDSKIRTESEILKEL---------------------VGIESRLEKLKFL 158
             + ++SGW+L++   RTESE+++E+                     VG+ SRL ++   
Sbjct: 145 TQLGSLSGWDLQE---RTESELIEEIIKDVLGKLRKSSLMSGAAMDFVGMNSRLVEMSMY 201

Query: 159 MGAG-CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQ 217
           +  G  NDV  IGI GMGG+GKTT+ARVVY+ ++ +F+GSSFLA+V+E  +K G ++ LQ
Sbjct: 202 LDMGRLNDVLFIGISGMGGIGKTTIARVVYEELASQFEGSSFLANVREVKEKHG-LVPLQ 260

Query: 218 KQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPG 277
           +QL+S++L   + +I + + G + I  R+ +K+VLL++DDV  +EQL+ LAG+ DWFG G
Sbjct: 261 QQLLSEILMDGNIAIWDAHCGTSEIVNRMCKKRVLLILDDVNQLEQLKLLAGRHDWFGSG 320

Query: 278 SRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNY 337
           SRIIITTRDEHLLK H V++++K++ L+ DE+  LFCL+AF++  P ++YV LS   VNY
Sbjct: 321 SRIIITTRDEHLLKCHGVDKIYKVQGLSQDESIHLFCLRAFKSDYPADDYVELSNEFVNY 380

Query: 338 AGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDV 397
             GLPLAL VLGSFLF + V+EWTS L RLK+ P  EIL+ L ISFDGL+E EK+IFLD+
Sbjct: 381 CNGLPLALDVLGSFLFDKSVNEWTSALRRLKQIPNQEILEKLFISFDGLEEVEKKIFLDI 440

Query: 398 ACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRR 457
           ACFF GE +DYV K+L+S GF P +GI  LI KSL+TI + +R+WMHDLL EMGR+IVR+
Sbjct: 441 ACFFNGEDKDYVIKVLESRGFYPHVGIRDLINKSLITISK-ERIWMHDLLQEMGREIVRQ 499

Query: 458 QSPREPGKRSRLWEEADLCHVLSQNT 483
           +S  EPGKRSRLW   D+ HVLS +T
Sbjct: 500 ESQEEPGKRSRLWLYEDVYHVLSNDT 525

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37781280|gb|AAP44392.1| nematode resistance-like protein [Solanum tuberosum]

 Score =  483 bits (1243), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 251/503 (49%), Positives = 352/503 (69%), Gaps = 25/503 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+ HLY AL  K I  F+DD++LEKG  ISP L+ +IEESRI++I+ S+NYA+STWCLD
Sbjct: 32  TFVDHLYLALQQKCINTFKDDEKLEKGKFISPELMSSIEESRIALIIFSKNYANSTWCLD 91

Query: 61  ELVKIVEYKNREDQIF-PIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL KI+E KN + QI  P+FYDV+P+ VRKQ + FGEAF+KHE  F++  +KVQKWR AL
Sbjct: 92  ELTKIMECKNVKGQIVVPVFYDVDPSTVRKQKSIFGEAFSKHEARFQE--DKVQKWRAAL 149

Query: 120 KVVANISGWELKDSKIRTESEIL--------------------KELVGIESRLEKLKFLM 159
           +  ANISGW+L ++    E+ ++                    + LVG+ES + K+  ++
Sbjct: 150 EEAANISGWDLPNTSNGHEARVMEKIAEDIMARLGSQRHASNARNLVGMESHMLKVYKML 209

Query: 160 GAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
           G G   V  +GI GM G+GKTTLARV+YD I  +F G+ FL +V+++  K+G +  LQ+ 
Sbjct: 210 GIGSGGVHFLGILGMSGVGKTTLARVIYDNIRSQFQGACFLHEVRDRSAKQG-LERLQEI 268

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
           L+S++L +    I N ++G NM  +RL+ KKVLLV+DDV H++QL  LAG+R+WFG GSR
Sbjct: 269 LLSEILVVKKLRINNSFEGANMQKQRLQYKKVLLVLDDVDHIDQLNALAGEREWFGDGSR 328

Query: 280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
           IIITT+D+HLL  +  E++++++ L   E+ QLF   AF+  +P +E+  LS  V+ +  
Sbjct: 329 IIITTKDKHLLVKYETEKIYRMKTLNNYESLQLFKQHAFKKNRPTKEFEDLSAQVIKHTD 388

Query: 340 GLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVAC 399
           GLPLALKVLGSFL+GR +DEW S +ERLK+ PENEIL  L+ SF GL   E++IFLD+AC
Sbjct: 389 GLPLALKVLGSFLYGRGLDEWISEVERLKQIPENEILKKLEQSFTGLHNTEQKIFLDIAC 448

Query: 400 FFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQS 459
           FF G+K+D V++IL+S  F PVIGI VL+EK L+TI +  R+ +H L+ +MG  IVRR++
Sbjct: 449 FFSGKKKDSVTRILESFHFCPVIGIKVLMEKCLITILQG-RITIHQLIQDMGWHIVRREA 507

Query: 460 PREPGKRSRLWEEADLCHVLSQN 482
             +P   SRLW+  D+C VL +N
Sbjct: 508 TDDPRMCSRLWKREDICPVLERN 530

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37781226|gb|AAP44390.1| nematode resistance protein [Solanum tuberosum]

 Score =  481 bits (1239), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 249/503 (49%), Positives = 352/503 (69%), Gaps = 25/503 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+ HLY AL  K I  F+DD++LEKG  ISP L+ +IEESRI++I+ S+NYA+STWCLD
Sbjct: 32  TFVDHLYLALEQKCINTFKDDEKLEKGKFISPELVSSIEESRIALIIFSKNYANSTWCLD 91

Query: 61  ELVKIVEYKNREDQIF-PIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL KI+E KN + QI  P+FYDV+P+ VRKQ + FGEAF+KHE  F++  +KVQKWR AL
Sbjct: 92  ELTKIMECKNVKGQIVVPVFYDVDPSTVRKQKSIFGEAFSKHEARFQE--DKVQKWRAAL 149

Query: 120 KVVANISGWELKDSKIRTESEIL--------------------KELVGIESRLEKLKFLM 159
           +  ANISGW+L ++    E+ ++                    + LVG+ES + K+  ++
Sbjct: 150 EEAANISGWDLPNTANGHEARVMEKIAEDIMARLGSQRHASNARNLVGMESHMHKVYKML 209

Query: 160 GAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
           G G   V  +GI GM G+GKTTLARV+YD I  +F G+ FL +V+++  K+G +  LQ+ 
Sbjct: 210 GIGSGGVHFLGILGMSGVGKTTLARVIYDNIRSQFQGACFLHEVRDRSAKQG-LERLQEI 268

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
           L+S++L +    I + ++G NM  +RL+ KKVLLV+DDV H++QL  LAG+R+WFG GSR
Sbjct: 269 LLSEILVVKKLRINDSFEGANMQKQRLQYKKVLLVLDDVDHIDQLNALAGEREWFGDGSR 328

Query: 280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
           IIITT+D+HLL  +  E++++++ L   E+ QLF   AF+  +P +E+  LS  V+ +  
Sbjct: 329 IIITTKDKHLLVKYETEKIYRMKTLNNYESLQLFKQHAFKKNRPTKEFEDLSAQVIKHTD 388

Query: 340 GLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVAC 399
           GLPLALKVLGSFL+GR +DEW S +ERLK+ PENEIL  L+ SF GL   E++IFLD+AC
Sbjct: 389 GLPLALKVLGSFLYGRGLDEWISEVERLKQIPENEILKKLEQSFTGLHNTEQKIFLDIAC 448

Query: 400 FFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQS 459
           FF G+K+D V++IL+S  F PVIGI VL+EK L+TI +  R+ +H L+ +MG  IVRR++
Sbjct: 449 FFSGKKKDSVTRILESFHFCPVIGIKVLMEKCLITILQG-RITIHQLIQDMGWHIVRREA 507

Query: 460 PREPGKRSRLWEEADLCHVLSQN 482
             +P   SR+W+  D+C VL +N
Sbjct: 508 TDDPRMCSRMWKREDICPVLERN 530

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  480 bits (1236), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 243/497 (48%), Positives = 345/497 (69%), Gaps = 21/497 (4%)

Query: 2   FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
           F  HL+ +L  +GI  F+DD  L++G  IS  L+KAIE S +++I+LS NYASSTWCLDE
Sbjct: 36  FTGHLFASLERRGIKTFKDDHDLQRGKLISVELMKAIEGSMLALIILSPNYASSTWCLDE 95

Query: 62  LVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKV 121
           L KI+E K    ++FPIF+ V+P+ VR Q  SF +AF++HEE FR++ +K+++WRHAL+ 
Sbjct: 96  LKKILECKK---EVFPIFHGVDPSDVRHQRGSFAKAFSEHEEKFREDKKKLERWRHALRE 152

Query: 122 VANISGWELKDSKIRTESEIL----------------KELVGIESRLEKLKFLMGAGCND 165
           VA+ SGW+ K+    T  E +                  LVGI+SR++++  LMG   ND
Sbjct: 153 VASYSGWDSKEQHEATLIETIVGHIQKKIIPRLPCCTDNLVGIDSRMKEVYSLMGISLND 212

Query: 166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLL 225
           VR IG+WGMGG+GKTT+AR VY+ I  +F+ S FL +++E   K   ++ +QK+L+  L 
Sbjct: 213 VRFIGLWGMGGIGKTTIARFVYEAIKGDFNVSCFLENIRE-VSKTNGLVHIQKELLFHL- 270

Query: 226 KLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTR 285
            +  +   N++DG N+I   L  KK+LLV+DDV+ + QL  LAGK++WFG GSR+IITTR
Sbjct: 271 NVRSSDFYNLHDGKNIIANSLSNKKILLVLDDVSELSQLENLAGKQEWFGSGSRVIITTR 330

Query: 286 DEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL 345
           D+HLLK H V    K + L  +EA +LFCLKAF+  +P+EEY++L + VV YA GLPLAL
Sbjct: 331 DKHLLKTHGVHLTCKAKGLAQNEALKLFCLKAFKQDQPKEEYLNLCKEVVEYARGLPLAL 390

Query: 346 KVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEK 405
           +VLGS L+GR V+ W S LE+++  P ++I D L+IS+D L+   +++FLD+ACFFKG  
Sbjct: 391 EVLGSHLYGRTVEVWHSALEQIRSFPHSKIQDTLKISYDSLQPPYQKMFLDIACFFKGMD 450

Query: 406 RDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGK 465
            D V  IL +CG+ P IGI +LIE+ L+T+    +L MHDLL EMGR IV ++SP +PGK
Sbjct: 451 IDEVKNILKNCGYHPEIGIDILIERCLVTLDRMKKLGMHDLLQEMGRNIVFQESPNDPGK 510

Query: 466 RSRLWEEADLCHVLSQN 482
           RSRLW + D+ +VL++N
Sbjct: 511 RSRLWSQKDIDYVLTKN 527

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37781356|gb|AAP44393.1| nematode resistance-like protein [Solanum tuberosum]

 Score =  479 bits (1233), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 248/503 (49%), Positives = 351/503 (69%), Gaps = 25/503 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+ HLY AL  K I  F+DD++LEKG  ISP L+ +IEESRI++I+ S+NYA+STWCLD
Sbjct: 32  TFVDHLYLALQQKCINTFKDDEKLEKGKFISPELVSSIEESRIALIIFSKNYANSTWCLD 91

Query: 61  ELVKIVEYKNREDQIF-PIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL KI+E KN + QI  P+FYDV+P+ VRKQ + FGEAF+KHE  F++  +KVQKWR AL
Sbjct: 92  ELTKIMECKNVKGQIVVPVFYDVDPSTVRKQKSIFGEAFSKHEARFQE--DKVQKWRAAL 149

Query: 120 KVVANISGWELKDSKIRTESEIL--------------------KELVGIESRLEKLKFLM 159
           +  ANISGW+L ++    E+ ++                    + LVG+ES + ++  ++
Sbjct: 150 EEAANISGWDLPNTSNGHEARVMEKIAEDIMARLGSQRHASNARNLVGMESHMHQVYKML 209

Query: 160 GAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
           G G   V  +GI GM G+GKTTLARV+YD I  +F G+ FL +V+++  K+G +  LQ+ 
Sbjct: 210 GIGSGGVHFLGILGMSGVGKTTLARVIYDNIRSQFQGACFLHEVRDRSAKQG-LERLQEI 268

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
           L+S++L +    I + ++G NM  +RL+ KKVLLV+DDV H++QL  LAG+R+WFG GSR
Sbjct: 269 LLSEILVVKKLRINDSFEGANMQKQRLQYKKVLLVLDDVDHIDQLNALAGEREWFGDGSR 328

Query: 280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
           IIITT+D+HLL  +  E++++++ L   E+ QLF   AF+  +P +E+  LS  V+ +  
Sbjct: 329 IIITTKDKHLLVKYETEKIYRMKTLNNYESLQLFKQHAFKKNRPTKEFEDLSAQVIKHTD 388

Query: 340 GLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVAC 399
           GLPLALKVLGSFL+GR +DEW S +ERLK+ PENEIL  L+ SF GL   E++IFLD+AC
Sbjct: 389 GLPLALKVLGSFLYGRGLDEWISEVERLKQIPENEILKKLEQSFTGLHNTEQKIFLDIAC 448

Query: 400 FFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQS 459
           FF G+K+D V++IL+S  F PVIGI VL+EK L+T  +  R+ +H L+ +MG  IVRR++
Sbjct: 449 FFSGKKKDSVTRILESFHFCPVIGIKVLMEKCLITTLQG-RITIHQLIQDMGWHIVRREA 507

Query: 460 PREPGKRSRLWEEADLCHVLSQN 482
             +P   SRLW+  D+C VL +N
Sbjct: 508 TDDPRMCSRLWKREDICPVLERN 530

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37781278|gb|AAP44391.1| nematode resistance-like protein [Solanum tuberosum]

 Score =  479 bits (1232), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 248/503 (49%), Positives = 349/503 (69%), Gaps = 25/503 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+ HLY AL  K I  F+DD++LEKG  ISP L+ +IEESRI++I+ S+NYA+STWCLD
Sbjct: 32  TFVDHLYLALEQKCINTFKDDEKLEKGKFISPELMSSIEESRIALIIFSKNYANSTWCLD 91

Query: 61  ELVKIVEYKNREDQIF-PIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL KI+E KN + QI  P+FYDV+P+ VR+Q   FGEAF+KHE  F +  +KV+KWR AL
Sbjct: 92  ELTKIIECKNVKGQIVVPVFYDVDPSTVRRQKNIFGEAFSKHEARFEE--DKVKKWRAAL 149

Query: 120 KVVANISGWELKDSKIRTESEIL--------------------KELVGIESRLEKLKFLM 159
           +  ANISGW+L ++    E+ ++                    + +VG+ES + ++  ++
Sbjct: 150 EEAANISGWDLPNTSNGHEARVIEKITEDIMVRLGSQRHASNARNVVGMESHMHQVYKML 209

Query: 160 GAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
           G G   VR +GI GM G+GKTTLARV+YD I  +F+G+ FL +V+++  K+G +  LQ+ 
Sbjct: 210 GIGSGGVRFLGILGMSGVGKTTLARVIYDNIQSQFEGACFLHEVRDRSAKQG-LEHLQEI 268

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
           L+S++L +    I + ++G NM  +RL+ KKVLLV+DDV H++QL  LAG+R+WFG GSR
Sbjct: 269 LLSEILVVKKLRINDSFEGANMQKQRLQYKKVLLVLDDVDHIDQLNALAGEREWFGDGSR 328

Query: 280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
           IIITT+D+HLL  +  E+++++  L   E+ QLF   AF+     +E+  LS  V+ + G
Sbjct: 329 IIITTKDKHLLVKYETEKIYRMGTLDKYESLQLFKQHAFKKNHSTKEFEDLSAQVIEHTG 388

Query: 340 GLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVAC 399
           GLPLALKVLGSFL+GR +DEW S +ERLK+ P+NEIL  L+ SF GL   E++IFLD+AC
Sbjct: 389 GLPLALKVLGSFLYGRGLDEWISEVERLKQIPQNEILKKLEPSFTGLNNIEQKIFLDIAC 448

Query: 400 FFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQS 459
           FF G+K+D V++IL+S  F PVIGI VL+EK L+TI +  R+ +H L+ EMG  IVRR++
Sbjct: 449 FFSGKKKDSVTRILESFHFSPVIGIKVLMEKCLITILKG-RITIHQLIQEMGWHIVRREA 507

Query: 460 PREPGKRSRLWEEADLCHVLSQN 482
              P   SRLW+  D+C VL QN
Sbjct: 508 SYNPRICSRLWKREDICPVLEQN 530

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130518|ref|XP_002328629.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222838611|gb|EEE76976.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  474 bits (1221), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 267/505 (52%), Positives = 351/505 (69%), Gaps = 24/505 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           +F  HLYTAL  +G+  FRDD++LE+G  IS  LL+AI++SR S+IV SRNY SSTWCL+
Sbjct: 28  SFTDHLYTALCHRGVITFRDDQELERGNEISRELLQAIQDSRFSVIVFSRNYTSSTWCLN 87

Query: 61  ELVKIVE-YKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           ELVKIVE  K     + P+FYDV+P+ VR QT    +AF  HEE F+DNIEKVQ WR A+
Sbjct: 88  ELVKIVECMKQGRQTVIPVFYDVDPSEVRNQTGRLQQAFADHEEVFKDNIEKVQTWRIAM 147

Query: 120 KVVANISGWELKD---------------SKIRTESE----ILKELVGIESRLEKLKFLMG 160
           K+VAN+SGW+L+D                K+R  S     + + LVG++ RLE++   +G
Sbjct: 148 KLVANLSGWDLQDRHESEFIQGIVEEIVCKLRKSSYSMSWVTENLVGMDWRLEEMSLYLG 207

Query: 161 A-GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
               NDVR+IGI GMGG+GKTT+AR VY+ +   F+GSSFLA+V+E  +K G ++ LQ+Q
Sbjct: 208 VEQLNDVRVIGICGMGGIGKTTIARAVYEKMLGHFEGSSFLANVREVEEKHG-LVRLQEQ 266

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
           L+SD L      I +V+ G+N I  RLR + VL+V+DDV  + QL  L G R+WF  GSR
Sbjct: 267 LLSDTLMDRRTKISDVHRGMNEIRVRLRSRMVLVVLDDVDQLVQLESLVGDRNWFDNGSR 326

Query: 280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
           +IITTRDE LLK   V++++++ +L   EA QLFCLKAF +  P E+YV  +  VV YA 
Sbjct: 327 VIITTRDELLLKQFGVDKIYRVASLNNIEAVQLFCLKAFRSYCPPEDYVLQTIQVVKYAD 386

Query: 340 GLPLALKVLGSFLFG-RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVA 398
           GLPLAL VLGSF  G R V+ W  +L+RLK  P+  ILD L+ISFDGL E EK+IFLD+A
Sbjct: 387 GLPLALHVLGSFFSGIRSVELWNHSLKRLKDIPDKGILDKLKISFDGLNEVEKKIFLDIA 446

Query: 399 CFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQ 458
           CFF G + D V+K+++S GF P IGI +L+EK L+ I + +R+WMHDLL EMGRQIV+R+
Sbjct: 447 CFFNGWEEDCVTKLMESSGFYPQIGIRILVEKFLINISD-NRVWMHDLLQEMGRQIVKRE 505

Query: 459 SPREPGKRSRLWEEADLCHVLSQNT 483
           S  EPGKR+RLW   D+ HVL  NT
Sbjct: 506 SHEEPGKRTRLWLCEDVIHVLLNNT 530

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493208|ref|XP_002269054.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  473 bits (1216), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 245/502 (48%), Positives = 340/502 (67%), Gaps = 27/502 (5%)

Query: 2   FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
           F  HLY+AL D G++ FRDD++LE+G  I+P LLKAIE+SRISI+V S  YA S WCLDE
Sbjct: 28  FTDHLYSALRDNGVHTFRDDEELERGDVIAPGLLKAIEQSRISIVVFSEKYAQSRWCLDE 87

Query: 62  LVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHE-EFFRDNIEKVQKWRHAL 119
           LVKI+E      QI  P+FY V+P+ VRKQ  S+GEAF  HE +      EK+QKWR AL
Sbjct: 88  LVKIIECMTERKQIVLPVFYHVDPSHVRKQMGSYGEAFADHEKDADLKKREKIQKWRTAL 147

Query: 120 KVVANISGWELKDSKIRTESEILKEL-------------------VGIESRLEKLKFLMG 160
              +N+SGW L+D++  +ES ++KE+                   VG+  RLEKL  L+ 
Sbjct: 148 TETSNLSGWHLRDNQ--SESNVIKEITDKIITRLNPRSLYVGKNIVGMNIRLEKLISLIN 205

Query: 161 AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL 220
              NDV  +GI G+GG+GKTT+A+ +Y+ IS++F G+SFLA+V+E  +K   ++ LQ+QL
Sbjct: 206 IDSNDVCFVGICGLGGIGKTTIAKALYNKISNQFQGASFLANVRENSEKHSDILQLQRQL 265

Query: 221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRI 280
           + D+ K  +  I NV++G++ I + L  ++VL+V+DDV + EQL   AG+ DWFGPGSRI
Sbjct: 266 LDDIDKGKNRKISNVHEGMDAIKKVLSLRRVLVVLDDVDNFEQLNHFAGEHDWFGPGSRI 325

Query: 281 IITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG 340
           +ITTR++HLL + +  E+   E L  +EA QLF L AF+    +E+Y  L   +V YA G
Sbjct: 326 LITTRNKHLLHVDKYHEI---EELNSEEALQLFSLYAFKPTCHQEDYEDLQDRIVKYAKG 382

Query: 341 LPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACF 400
           LPLAL+VLGS L  R   EW S L +L+REP  EI ++L+IS+DGL   + EIFLD+ACF
Sbjct: 383 LPLALQVLGSHLCERTPSEWESELHKLEREPIQEIQNVLKISYDGLDRTQGEIFLDIACF 442

Query: 401 FKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSP 460
           FKG+ +D+VS+ILD C F    G  VL +K L+TI + ++++MHDL+ +MG  IVR Q+P
Sbjct: 443 FKGQDKDFVSRILDGCDFYAESGFSVLCDKCLITILD-NKIYMHDLIQQMGWHIVREQNP 501

Query: 461 REPGKRSRLWEEADLCHVLSQN 482
            +PGK SRLWE  D+  VL++N
Sbjct: 502 EKPGKWSRLWEREDVFRVLTRN 523

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	483
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.691	0.291	0.464	2.1e-114
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.977	0.364	0.452	1.1e-105
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.985	0.399	0.46	2.9e-103
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.710	0.247	0.370	2.4e-93
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.710	0.220	0.376	3.5e-86
TAIR|locus:2094498	1981	AT3G25510 [Arabidopsis thalian	0.968	0.236	0.408	5e-85
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.981	0.443	0.380	1.7e-84
TAIR|locus:2161513	780	AT5G17970 [Arabidopsis thalian	0.766	0.474	0.346	3.5e-84
TAIR|locus:2076043	1194	RPP1 "recognition of peronospo	0.751	0.304	0.376	4.3e-83
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.703	0.285	0.385	2.2e-82

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

 Score = 765 (274.4 bits), Expect = 2.1e-114, Sum P(2) = 2.1e-114
 Identities = 162/349 (46%), Positives = 238/349 (68%)

Query:   142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI------SHEFD 195
             L+ +VGI++ LEK++ L+  G N VR++GIWGMGG+GKTT+AR ++D +      S++FD
Sbjct:   185 LQNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFD 244

Query:   196 GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVI 255
             G+ FL D+KE  +K G + SLQ  L+S+LL+   N   N  DG + +  RLR KKVL+V+
Sbjct:   245 GACFLKDIKE--NKRG-MHSLQNALLSELLREKAN-YNNEEDGKHQMASRLRSKKVLIVL 300

Query:   256 DDVAHVEQ-LRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFC 314
             DD+ + +  L  LAG  DWFG GSRIIITTRD+HL++ + +  ++++ AL   E+ QLF 
Sbjct:   301 DDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFK 358

Query:   315 LKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENE 374
               AF  + P E +  LS  VVNYA GLPLALKV GS L    + EW S +E +K    + 
Sbjct:   359 QHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSG 418

Query:   375 ILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLT 434
             I+D L+IS+DGL+  ++E+FLD+ACF +GE++DY+ +IL+SC      G+ +LI+KSL+ 
Sbjct:   419 IIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVF 478

Query:   435 ICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT 483
             I E +++ MHDL+ +MG+ IV  Q  ++PG+RSRLW   ++  V+S NT
Sbjct:   479 ISEYNQVQMHDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVMSNNT 525

GO:0005515 "protein binding" evidence=IPI

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

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 227/502 (45%), Positives = 320/502 (63%)

Query:     1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
             TF+SHL+   +  GI  FRDD  L++G SISP L+ AI+ SR +I+V+SRNYA+S+WCLD
Sbjct:    32 TFVSHLFCEFDRMGIKAFRDDLDLQRGKSISPELIDAIKGSRFAIVVVSRNYAASSWCLD 91

Query:    61 ELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALK 120
             EL+KI+E    +D I PIFY+V+P+ VR+Q  SFGE    H +      EKV KW+ ALK
Sbjct:    92 ELLKIMECN--KDTIVPIFYEVDPSDVRRQRGSFGEDVESHSDK-----EKVGKWKEALK 144

Query:   121 VVANISG-----WE-----------LKDSKIRTESEILKELVGIESRLEKLKFLMGAGCN 164
              +A ISG     W+           + D  + T  +  K L+G+ S ++ L+ ++     
Sbjct:   145 KLAAISGEDSRNWDDSKLIKKIVKDISDKLVSTSWDDSKGLIGMSSHMDFLQSMISIVDK 204

Query:   165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDL 224
             DVRM+GIWGMGG+GKTT+A+ +Y+ +S +F    F+ +VKE  ++ G V  LQ + +  +
Sbjct:   205 DVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMENVKEVCNRYG-VRRLQVEFLCRM 263

Query:   225 LKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITT 284
              +  D    +     N+I  R R K V +V+DDV   EQL  L  +  WFGPGSRII+TT
Sbjct:   264 FQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTT 323

Query:   285 RDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQ--KPREEYVHLSQLVVNYAGGLP 342
             RD HLL  H +  V+K++ L   EA QLFC  AF  +   P   +  LS   VNYA GLP
Sbjct:   324 RDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREEIILPHG-FEELSVQAVNYASGLP 382

Query:   343 LALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFK 402
             LAL+VLGSFL+ R   EW STL RLK  P ++I+++L++S+DGL E EK IFL ++CF+ 
Sbjct:   383 LALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYN 442

Query:   403 GEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDR-LWMHDLLLEMGRQIVRRQSPR 461
              ++ DYV K+LD CG+   IGI +L EKSL  I ES+  + +HDLL +MGR++VR+Q+  
Sbjct:   443 MKQVDYVRKLLDLCGYAAEIGITILTEKSL--IVESNGCVKIHDLLEQMGRELVRQQAVN 500

Query:   462 EPGKRSRLWEEADLCHVLSQNT 483
              P +R  LW+  D+CH+LS+N+
Sbjct:   501 NPAQRLLLWDPEDICHLLSENS 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 = 1023 (365.2 bits), Expect = 2.9e-103, P = 2.9e-103
 Identities = 230/500 (46%), Positives = 317/500 (63%)

Query:     2 FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
             F+SHLY +L   GI  F DD +L++G  ISP LL AIE S+I I+VL+++YASS WCLDE
Sbjct:    32 FLSHLYDSLRRCGISTFMDDVELQRGEYISPELLNAIETSKILIVVLTKDYASSAWCLDE 91

Query:    62 LVKIVE-YKNREDQ-IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
             LV I++ +KN     +FPIF  V+P+ +R Q  S+ ++F+KH+      + K++ WR AL
Sbjct:    92 LVHIMKSHKNNPSHMVFPIFLYVDPSDIRWQQGSYAKSFSKHKN--SHPLNKLKDWREAL 149

Query:   120 KVVANISGWELKDSK-----IRTESEILKEL-----------VGIESRLEKLKFLMGAGC 163
               VANISGW++K+            EILK L           VG+ SRL+ +  L+  G 
Sbjct:   150 TKVANISGWDIKNRNEAECIADITREILKRLPCQYLHVPSYAVGLRSRLQHISSLLSIGS 209

Query:   164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISD 223
             + VR+I I+GMGG+GKTTLA+V ++  SH F+GSSFL + +E   K      LQ QL+SD
Sbjct:   210 DGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREYSKKPEGRTHLQHQLLSD 269

Query:   224 LLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIIT 283
             +L+  D   + + D  + +  R R K+VLLV+DDV  V QL   A  RD FG GSRIIIT
Sbjct:   270 ILRRNDIEFKGL-D--HAVKERFRSKRVLLVVDDVDDVHQLNSAAIDRDCFGHGSRIIIT 326

Query:   284 TRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL 343
             TR+ HLLK  R E  +  + L  DE+ +LF   AF T +P +E++  S+ VV Y  GLPL
Sbjct:   327 TRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKEFLQHSEEVVTYCAGLPL 386

Query:   344 ALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKG 403
             A++VLG+FL  R + EW STL+ LKR P + I   LQISF+ L   +K++FLD+ACFF G
Sbjct:   387 AVEVLGAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFNALTIEQKDVFLDIACFFIG 446

Query:   404 EKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREP 463
                 YV+ ILD C   P I + +L+E+ L+TI   + + MHDLL +MGRQIVR  SP++ 
Sbjct:   447 VDSYYVACILDGCNLYPDIVLSLLMERCLITI-SGNNIMMHDLLRDMGRQIVREISPKKC 505

Query:   464 GKRSRLWEEADLCHVLSQNT 483
             G+RSRLW   D+  VL + +
Sbjct:   506 GERSRLWSHNDVVGVLKKKS 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

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

 Score = 657 (236.3 bits), Expect = 2.4e-93, Sum P(2) = 2.4e-93
 Identities = 129/348 (37%), Positives = 222/348 (63%)

Query:   137 TESEILKELVGIESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD 195
             T  ++ + +VG+ES L+ L  L+     + V+++G++GMGG+GKTTLA+  Y+ I   F+
Sbjct:   181 TPEKVGEFIVGLESPLKDLTGLIDTESSSGVQVLGLYGMGGIGKTTLAKAFYNKIVGNFE 240

Query:   196 GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVI 255
               +F++D++E+   E  +++LQK LI +L +L    I +V  G+  I   + +KK+++V+
Sbjct:   241 QRAFISDIRERSSAENGLVTLQKTLIKELFRLVPE-IEDVSIGLEKIKANVHEKKIIVVL 299

Query:   256 DDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCL 315
             DDV H++Q+  L G+  W+G G+ I+ITTRD  +L    V + ++++ LT  +A +LF  
Sbjct:   300 DDVDHIDQVHALVGETRWYGQGTLIVITTRDSEILSKLSVNQQYEVKCLTEPQALKLFSY 359

Query:   316 KAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVD-EWTSTLERLKREPENE 374
              +   ++P +  + LS+ +V  +G LPLA++V GS L+ +  + +W + L++LK+     
Sbjct:   360 HSLRKEEPTKNLLALSKKIVQISGLLPLAVEVFGSLLYDKKEEKDWQTQLDKLKKTQPGN 419

Query:   375 ILDILQISFDGLKEAEKEIFLDVACFF-KGE-KRDYVSKILDSCGFEPVIGIGVLIEKSL 432
             + D+L++SF  L + EK++FLD+AC F K E K+D V  +L  CG      + VL +KSL
Sbjct:   420 LQDVLELSFKSLDDEEKKVFLDIACLFLKMEIKKDEVVIVLKGCGLNAEAALSVLRQKSL 479

Query:   433 LTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLS 480
             + I  +D LWMHD + +MGRQ+V ++S  +PG RSRLW+  ++  VL+
Sbjct:   480 VKILANDTLWMHDQIRDMGRQMVLKESREDPGLRSRLWDRGEIMTVLN 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:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 625 (225.1 bits), Expect = 3.5e-86, Sum P(2) = 3.5e-86
 Identities = 132/351 (37%), Positives = 214/351 (60%)

Query:   135 IRTESEILKEL-VGIESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISH 192
             +R   EI+ +  VG+ES ++ L  L      + ++++G++GMGG+GKTTLA+  Y+ I  
Sbjct:   351 VRNRPEIVADYTVGLESPIKDLMKLFNTESSSGIQVMGLYGMGGIGKTTLAKAFYNKIIV 410

Query:   193 EFDGSS-FLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKV 251
              F+    F+  V+ K   +  +++LQK LI +L +L    I +V  G+  I   + +KK+
Sbjct:   411 NFNRHRVFIESVRGKSSDQDGLVNLQKTLIKELFRLVPE-IEDVSIGLEKIKENVHEKKI 469

Query:   252 LLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQ 311
             ++V+DDV H++Q+  L G+  W+G GS I+ITTRD  +L    V + ++++ LT  +A +
Sbjct:   470 IVVLDDVDHIDQVNALVGETSWYGEGSLIVITTRDSEILSKLSVNQQYEVKCLTEPQALK 529

Query:   312 LFCLKAFETQKPREE-YVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKRE 370
             LF   +   +KP  +  + LS+ +    G LPLA+KV GS  + +  +EW   LE+LK +
Sbjct:   530 LFSFYSLRKEKPPTQGLLELSKKIAEVTGLLPLAVKVFGSHFYDKDENEWQVELEKLKTQ 589

Query:   371 PENEILDILQISFDGLKEAEKEIFLDVACFF-KGE-KRDYVSKILDSCGFEPVIGIGVLI 428
              ++++  +L +SF  L E EK+IFLD+AC F K +  ++ V  IL  CG      + VLI
Sbjct:   590 -QDKLHGVLALSFKSLDEEEKKIFLDIACLFLKMDITKEEVVDILKGCGLNAEAALRVLI 648

Query:   429 EKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVL 479
             +KSLLTI   D LWMHD + +MGRQ+V ++S  +P  RSRLW+  ++ +VL
Sbjct:   649 QKSLLTILTDDTLWMHDQIRDMGRQMVHKESSDDPEMRSRLWDRGEIMNVL 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:2094498 AT3G25510 [Arabidopsis thaliana (taxid:3702)]

 Score = 864 (309.2 bits), Expect = 5.0e-85, P = 5.0e-85
 Identities = 200/489 (40%), Positives = 294/489 (60%)

Query:     1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
             TF+SH+  A   KGI  F D+  +E+  SI P L++AI  SRI+I++LSRNYASS+WC++
Sbjct:    67 TFLSHVLEAFRGKGIDPFIDNS-IERSKSIGPELVEAIRGSRIAIVLLSRNYASSSWCMN 125

Query:    61 ELVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
             ELV+I++ K    QI   IFY+V+PT ++KQT  FG+ F   E       E++++WR AL
Sbjct:   126 ELVEIMKCKEDLGQIVITIFYEVDPTHIKKQTGDFGKVFK--ETCKGKTKEEIKRWRKAL 183

Query:   120 KVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGK 179
             + VA I+G+        + +   + L+G+ + +E ++ L+    +DVRMIGIWG  G+GK
Sbjct:   184 EGVATIAGYH-------SSNWDFEALIGMGAHMENMRALLRLDLDDVRMIGIWGPPGIGK 236

Query:   180 TTLARVVYDLISHEFDGSSFLADVKEKYDK----EGSV-ISLQKQLISDLLKLADNSIRN 234
             TT+AR +   +S  F  S+ + ++KE Y      E SV + LQ +++S ++   D  I +
Sbjct:   237 TTIARFLLSQVSKSFQLSTIMVNIKECYPSPCLDEYSVQLQLQNKMLSKMINQKDIMIPH 296

Query:   235 VYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHR 294
             +  G+     RL+ KKV LV+DDV  + QL  LA +  WFGPGSRIIITT +  LL  HR
Sbjct:   297 L--GVAQ--ERLKDKKVFLVLDDVDQLGQLDALAKETRWFGPGSRIIITTENLRLLMAHR 352

Query:   295 VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFG 354
             +  ++K+E  + DEAFQ+FC+ AF  + P   +  LS+ V   AGGLPL LKV+GS L G
Sbjct:   353 INHIYKVEFSSTDEAFQIFCMHAFGQKHPYNGFYELSREVTELAGGLPLGLKVMGSSLRG 412

Query:   355 RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILD 414
                 EW  TL RL+   + +I  IL  S++ L   +K++FL +ACFF  +K   V K L 
Sbjct:   413 MSKQEWKRTLPRLRTCLDGKIESILMFSYEALSHEDKDLFLCIACFFNYQKIKKVEKHLA 472

Query:   415 SCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEAD 474
                 +   G+ VL EKSL+ I  +    MH LL+++GR+I   QS  +P K   L +E +
Sbjct:   473 DRFLDVRQGLYVLAEKSLIHI-GTGATEMHTLLVQLGREIAHTQSTNDPRKSLFLVDERE 531

Query:   475 LCHVLSQNT 483
             +C  LS  T
Sbjct:   532 ICEALSDET 540

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:2175075 AT5G41750 [Arabidopsis thaliana (taxid:3702)]

 Score = 846 (302.9 bits), Expect = 1.7e-84, P = 1.7e-84
 Identities = 192/505 (38%), Positives = 305/505 (60%)

Query:     2 FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
             F+SHL++    KGI  F D K +++G +I P L++ I E+R+SI+VLS+ YASS+WCLDE
Sbjct:    28 FLSHLHSVFASKGITTFNDQK-IDRGQTIGPELIQGIREARVSIVVLSKKYASSSWCLDE 86

Query:    62 LVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALK 120
             LV+I++ K    QI   +FY+V+P+ V+KQ+  FGEAF K  +   + + K+ +WR+AL 
Sbjct:    87 LVEILKCKEALGQIVMTVFYEVDPSDVKKQSGVFGEAFEKTCQGKNEEV-KI-RWRNALA 144

Query:   121 VVANISG-----WELKDSKIR------------TESEILKELVGIESRLEKLKFLMGAGC 163
              VA I+G     W+ +   I+            T S   + +VG+E+ L++L  L+    
Sbjct:   145 HVATIAGEHSLNWDNEAKMIQKIVTDVSDKLNLTPSRDFEGMVGMEAHLKRLNSLLCLES 204

Query:   164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG----SVISLQKQ 219
             ++V+MIGIWG  G+GKTT+AR +++ IS  F    F+ ++K    K G    S +SLQKQ
Sbjct:   205 DEVKMIGIWGPAGIGKTTIARTLFNKISSIFPFKCFMENLKGSI-KGGAEHYSKLSLQKQ 263

Query:   220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR 279
             L+S++LK  +  I +    +  I + L  +KVL+++DDV  +EQL  LA    WFG GSR
Sbjct:   264 LLSEILKQENMKIHH----LGTIKQWLHDQKVLIILDDVDDLEQLEVLAEDPSWFGSGSR 319

Query:   280 IIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG 339
             II+TT D+++LK HR+++++ ++  + +EA ++ CL AF+     + +  L+  V    G
Sbjct:   320 IIVTTEDKNILKAHRIQDIYHVDFPSEEEALEILCLSAFKQSSIPDGFEELANKVAELCG 379

Query:   340 GLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVAC 399
              LPL L V+G+ L  +  +EW   L R++   +  I +IL+I +D L   ++ +FL +AC
Sbjct:   380 NLPLGLCVVGASLRRKSKNEWERLLSRIESSLDKNIDNILRIGYDRLSTEDQSLFLHIAC 439

Query:   400 FFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLE-MGRQIVRRQ 458
             FF  EK DY++ +L     + V G  +L ++SL+ I     + MH  LL+ +GR+IV  Q
Sbjct:   440 FFNNEKVDYLTALLADRKLDVVNGFNILADRSLVRISTDGHVVMHHYLLQKLGRRIVHEQ 499

Query:   459 SPREPGKRSRLWEEADLCHVLSQNT 483
              P EPGKR  L E  ++  VL++ T
Sbjct:   500 WPNEPGKRQFLIEAEEIRDVLTKGT 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" 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

TAIR|locus:2161513 AT5G17970 [Arabidopsis thaliana (taxid:3702)]

 Score = 579 (208.9 bits), Expect = 3.5e-84, Sum P(2) = 3.5e-84
 Identities = 130/375 (34%), Positives = 206/375 (54%)

Query:   114 KWRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWG 173
             KW +  K++  I  +  ++    T S   ++L+G+E+ +  LK ++G   N+V+MIG+WG
Sbjct:   159 KWDNDAKMIEKIVAYVSEELFCFTSSTDFEDLLGLEAHVANLKSMLGLESNEVKMIGVWG 218

Query:   174 MGGLGKTTLARVVYDLISHEFDGSS----FLADVKEKYD-KEGSVISLQKQLISDLLKLA 228
               G+GKTT+ R++Y+ +S   D       F+ +VK  Y  KE    S++  L    L   
Sbjct:   219 PAGIGKTTITRILYNQLSSSNDDDFQLFIFMENVKGSYRRKEIDGYSMKLHLRERFLSEI 278

Query:   229 DNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEH 288
                 +     + +   RL+ +K L+V+DDV  +EQLR LA +  W G G+RI++TT D  
Sbjct:   279 TTQRKIKVSHLGVAQERLKNQKALIVLDDVDELEQLRALADQTQWVGNGTRILVTTEDRQ 338

Query:   289 LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL 348
             LLK H +  V++++  + DEA ++ C  AF      E Y  L+  VV  AG LPL L VL
Sbjct:   339 LLKAHGITHVYEVDYPSRDEALKILCQCAFGKNSAPEGYNDLAVEVVELAGYLPLGLSVL 398

Query:   349 GSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDY 408
             G+ L G    EW + L RL+     +I  +L++ ++GL E +K IFL +AC F G+  D 
Sbjct:   399 GASLRGMSKKEWINALPRLRTSLNGKIEKLLRVCYEGLDEKDKAIFLHIACLFNGKNVDR 458

Query:   409 VSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSR 468
             V  +L     +   G+ VL+++SL+ I     + MH LL ++G++I R Q   EPGKR  
Sbjct:   459 VKLLLAKSALDVEFGLKVLVDRSLIHIDADGYIVMHCLLQQLGKEITRGQCLDEPGKRKF 518

Query:   469 LWEEADLCHVLSQNT 483
             L +  ++  VL+  T
Sbjct:   519 LVDSLEISDVLADET 533

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:2076043 RPP1 "recognition of peronospora parasitica 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 589 (212.4 bits), Expect = 4.3e-83, Sum P(2) = 4.3e-83
 Identities = 141/375 (37%), Positives = 213/375 (56%)

Query:   115 WRHALKVVANISGWELKDSKIRTESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGM 174
             WR+   ++  IS          T S     LVG+ + ++ L+ L+    ++VRMIGIWG 
Sbjct:   242 WRNEADMIEKISTDVSNMLNSFTPSRDFDGLVGMRAHMDMLEQLLRLDLDEVRMIGIWGP 301

Query:   175 GGLGKTTLARVVYDLISHEFDGSSFLADVKEKY-----DKEGSVISLQKQLISDLLKLAD 229
              G+GKTT+AR +++ +S  F  S+ + ++K  Y     D+  + + LQ Q++S ++   D
Sbjct:   302 PGIGKTTIARFLFNQVSDRFQLSAIMVNIKGCYPRPCFDEYSAQLQLQNQMLSQMINHKD 361

Query:   230 NSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL 289
               I ++  G+     RLR KKV LV+D+V  + QL  LA +  WFGPGSRIIITT D  +
Sbjct:   362 IMISHL--GVAQ--ERLRDKKVFLVLDEVDQLGQLDALAKETRWFGPGSRIIITTEDLGV 417

Query:   290 LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG 349
             LK H +  V+K+E  + DEAFQ+FC+ AF  ++P E +  ++  V   AG LPL LKVLG
Sbjct:   418 LKAHGINHVYKVEYPSNDEAFQIFCMNAFGQKQPHEGFDEIAWEVTCLAGELPLGLKVLG 477

Query:   350 SFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYV 409
             S L G+   EW  TL RLK   + +I  I+Q S+D L + +K +FL +AC F GE    V
Sbjct:   478 SALRGKSKREWERTLPRLKTSLDGKIGSIIQFSYDVLCDEDKYLFLYIACLFNGESTTKV 537

Query:   410 SKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVRRQSPREP-GKRSR 468
              ++L     +   G+ +L +KSL++  + +R+ MH LL + GR+  R+Q       KR  
Sbjct:   538 KELLGKF-LDVKQGLHLLAQKSLISF-DGERIHMHTLLEQFGRETSRKQFVHHGFTKRQL 595

Query:   469 LWEEADLCHVLSQNT 483
             L     +C VL  +T
Sbjct:   596 LVGARGICEVLDDDT 610

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0002239 "response to oomycetes" evidence=IDA

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP;TAS

GO:0030275 "LRR domain binding" evidence=ISS

TAIR|locus:2147992 AT5G11250 [Arabidopsis thaliana (taxid:3702)]

 Score = 624 (224.7 bits), Expect = 2.2e-82, Sum P(2) = 2.2e-82
 Identities = 135/350 (38%), Positives = 211/350 (60%)

Query:   137 TESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG 196
             T S     LVG+ + LEK+K L+    ++VR+IGIWG  G+GKTT+ARVVY+ +SH F  
Sbjct:   228 TPSRDFDGLVGMRAHLEKMKPLLCLDTDEVRIIGIWGPPGIGKTTIARVVYNQLSHSFQL 287

Query:   197 SSFLADVKEKY------DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKK 250
             S F+ ++K  Y      D   + + LQ+  +S + K  D  I ++  G+     RL+ KK
Sbjct:   288 SVFMENIKANYTRPTGSDDYSAKLQLQQMFMSQITKQKDIEIPHL--GVAQ--DRLKDKK 343

Query:   251 VLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAF 310
             VL+V+D V    QL  +A +  WFGPGSRIIITT+D+ L + H +  ++K++    +EA 
Sbjct:   344 VLVVLDGVNQSVQLDAMAKEAWWFGPGSRIIITTQDQKLFRAHGINHIYKVDFPPTEEAL 403

Query:   311 QLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKRE 370
             Q+FC+ AF    P++ + +L+  V+N AG LPL L+++GS+  G   +EW  +L RL+  
Sbjct:   404 QIFCMYAFGQNSPKDGFQNLAWKVINLAGNLPLGLRIMGSYFRGMSREEWKKSLPRLESS 463

Query:   371 PENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEK 430
              + +I  IL+ S+D L + +K +FL +ACFF G++   + + L     E    + VL EK
Sbjct:   464 LDADIQSILKFSYDALDDEDKNLFLHIACFFNGKEIKILEEHLAKKFVEVRQRLNVLAEK 523

Query:   431 SLLTICESDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLS 480
             SL++      + MH LL ++G +IVR QS  EPG+R  L++  ++C VL+
Sbjct:   524 SLISFSNWGTIEMHKLLAKLGGEIVRNQSIHEPGQRQFLFDGEEICDVLN 573

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	483
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-108
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-42
pfam01582	135	pfam01582, TIR, TIR domain	1e-36
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	1e-31
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	2e-08
pfam13676	102	pfam13676, TIR_2, TIR domain	9e-07

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

 Score =  346 bits (889), Expect = e-108
 Identities = 190/513 (37%), Positives = 293/513 (57%), Gaps = 40/513 (7%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+SH    L+ K I  F+D+ ++E+  S+ P L +AI +SRI+++V S+NYASS+WCL+
Sbjct: 27  TFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLN 85

Query: 61  ELVKIVEYKNREDQ-IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL++IV  K    Q + P+FY ++P+ VRKQT  FGEAF K  +      ++  +W+ AL
Sbjct: 86  ELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQ--NKTEDEKIQWKQAL 143

Query: 120 KVVANISG-----WELKDSKIR------------TESEILKELVGIESRLEKLKFLMGAG 162
             VANI G     W  +   I             T S   ++ VGIE  + K+  L+   
Sbjct: 144 TDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLE 203

Query: 163 CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGS-----SFLADVKEKYDKEGSV---- 213
             +VRM+GIWG  G+GKTT+AR ++  +S +F  S     +F++   E Y          
Sbjct: 204 SEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNM 263

Query: 214 -ISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRD 272
            + LQ+  +S++L   D  I      +  +  RL+ +KVL+ IDD+   + L  LAG+  
Sbjct: 264 KLHLQRAFLSEILDKKDIKI----YHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQ 319

Query: 273 WFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQ 332
           WFG GSRII+ T+D+H L+ H ++ ++++   + + A ++FC  AF+   P + ++ L+ 
Sbjct: 320 WFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELAS 379

Query: 333 LVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLK-EAEK 391
            V   AG LPL L VLGS+L GR  ++W   L RL+   + +I   L++S+DGL  + +K
Sbjct: 380 EVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDK 439

Query: 392 EIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICES-DRLWMHDLLLEM 450
            IF  +AC F GEK + +  +L +   +  IG+  L++KSL  I    D + MH LL EM
Sbjct: 440 AIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSL--IHVREDIVEMHSLLQEM 497

Query: 451 GRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT 483
           G++IVR QS  EPG+R  L +  D+C VL  NT
Sbjct: 498 GKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

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

 Score =  151 bits (384), Expect = 2e-42
 Identities = 89/291 (30%), Positives = 144/291 (49%), Gaps = 20/291 (6%)

Query: 148 IESRLEKLK-FLMGAGCNDVRMIGIWGMGGLGKTTLARVVY--DLISHEFDGSSFLADVK 204
            E  +E L   L+    +++ ++GI GMGG+GKTTLA+ +Y  D +   FD  +++  V 
Sbjct: 1   REDMIEALIEKLLE-MSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV-VVS 58

Query: 205 EKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGI-NMIGRRLRQKKVLLVIDDVAHVEQ 263
           + Y +      LQK ++ +L     + +      +   I   L +K+ LLV+DDV     
Sbjct: 59  KTYTEF----RLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKND 114

Query: 264 LRRLAGKRDWFGPGSRIIITTRDEHLLK-LHRVEEVFKLEALTYDEAFQLFCLKAFE-TQ 321
             ++         GSR+I+TTR E +   +    +  ++E+L  +E+++LF  K FE   
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKEL 174

Query: 322 KPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRP-VDEWTSTLERLKREPE-----NEI 375
            P  E   +++ +V    GLPLALKVLG  L  +  V EW   LE+L  E       NE+
Sbjct: 175 PPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEV 234

Query: 376 LDILQISFDGLKEAEKEIFLDVACFFKGEK--RDYVSKILDSCGFEPVIGI 424
           L IL +S+D L    K  FL +A F +     ++ + K+  + GF     I
Sbjct: 235 LSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPSDI 285

Length = 285

>gnl|CDD|216585 pfam01582, TIR, TIR domain

 Score =  131 bits (332), Expect = 1e-36
 Identities = 57/123 (46%), Positives = 78/123 (63%), Gaps = 3/123 (2%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
           TF+SHL   L +KGI +  DD+    G SI  NL +AIE+SR +I++ S NYASS WCLD
Sbjct: 13  TFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIFSSNYASSEWCLD 72

Query: 61  ELVKIVEYKNREDQ---IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRH 117
           ELV+IV+          I PIFY V+P+ VR Q+  FG+AF K  ++  D  +K++ W+ 
Sbjct: 73  ELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWSGDKEDKIRFWKK 132

Query: 118 ALK 120
           AL 
Sbjct: 133 ALY 135

The Toll/interleukin-1 receptor (TIR) homology domain is an intracellular signalling domain found in MyD88, interleukin 1 receptor and the Toll receptor. It contains three highly-conserved regions, and mediates protein-protein interactions between the Toll-like receptors (TLRs) and signal-transduction components. TIR-like motifs are also found in plant proteins thought to be involved in resistance to disease. When activated, TIR domains recruit cytoplasmic adaptor proteins MyD88 and TOLLIP (Toll interacting protein). In turn, these associate with various kinases to set off signalling cascades. Length = 135

>gnl|CDD|214587 smart00255, TIR, Toll - interleukin 1 - resistance

 Score =  117 bits (296), Expect = 1e-31
 Identities = 57/128 (44%), Positives = 74/128 (57%), Gaps = 7/128 (5%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F+SHL   L   G+ VF DD   E GG     + +AIE+SRI+I+VLS NYA S WCLD
Sbjct: 17  EFLSHLLEKLRGYGLCVFIDDF--EPGGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLD 74

Query: 61  ELVKIVEYKNREDQ--IFPIFYDVEPTVVRKQTTSFGEAFTKHE-EFFRDNIEKVQKWRH 117
           ELV  +E    E    + PIFY+V P+ VRKQ   F + F K+  ++  D  EK Q W+ 
Sbjct: 75  ELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNYLKWPED--EKEQFWKK 132

Query: 118 ALKVVANI 125
           AL  V + 
Sbjct: 133 ALYAVPSK 140

Length = 140

>gnl|CDD|215626 PLN03194, PLN03194, putative disease resistance protein; Provisional

 Score = 53.7 bits (129), Expect = 2e-08
 Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 3/83 (3%)

Query: 6   LYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKI 65
           LY  L+   +  F D+K ++ G  +   +  AI   ++ + V S  Y  S +CL EL  I
Sbjct: 46  LYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALI 105

Query: 66  VEYKNREDQIFPIFYDVEPTVVR 88
           +E K R   + PIF DV+P+ +R
Sbjct: 106 MESKKR---VIPIFCDVKPSQLR 125

Length = 187

>gnl|CDD|222311 pfam13676, TIR_2, TIR domain

 Score = 46.8 bits (112), Expect = 9e-07
 Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 14/90 (15%)

Query: 2  FISH----------LYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRN 51
          FIS+          L  AL   GI V+ D   +  G      + +A+  + + +++LS  
Sbjct: 2  FISYASADREWAEWLADALEAAGIRVWLD-WDIPPGEDWRDEIEEALRSADVVLVLLSPA 60

Query: 52 YASSTWCLDELVKIVEYKNREDQIFPIFYD 81
          Y +S WC  E         R  ++ P+  +
Sbjct: 61 YLASPWCRAEWGAA---LERGKRLIPVRLE 87

This is a family of bacterial Toll-like receptors. Length = 102

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	483
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
PLN03194	187	putative disease resistance protein; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.77
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.75
COG3899	849	Predicted ATPase [General function prediction only	99.65
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.58
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.57
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.55
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.52
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.5
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.47
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.47
COG3903	414	Predicted ATPase [General function prediction only	99.3
PF05729	166	NACHT: NACHT domain	99.26
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.25
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.24
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.19
PRK12402	337	replication factor C small subunit 2; Reviewed	99.07
PRK13342	413	recombination factor protein RarA; Reviewed	99.06
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.04
PRK06893	229	DNA replication initiation factor; Validated	98.96
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.93
PLN03025	319	replication factor C subunit; Provisional	98.92
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.92
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.91
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.9
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.9
PRK04195	482	replication factor C large subunit; Provisional	98.89
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.86
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.83
PF14516	331	AAA_35: AAA-like domain	98.83
PTZ00202	550	tuzin; Provisional	98.82
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.78
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.78
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.77
PF13173	128	AAA_14: AAA domain	98.76
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.76
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.76
PRK13341	725	recombination factor protein RarA/unknown domain f	98.75
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.73
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.72
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.71
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.7
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.69
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.69
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.69
PRK08727	233	hypothetical protein; Validated	98.68
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.68
KOG2028	554	consensus ATPase related to the helicase subunit o	98.67
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.66
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.66
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.66
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.64
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.63
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.61
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.61
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.61
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.61
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.59
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.59
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.57
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.57
PRK08084	235	DNA replication initiation factor; Provisional	98.57
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK05642	234	DNA replication initiation factor; Validated	98.55
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.53
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.53
PRK09087	226	hypothetical protein; Validated	98.52
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.52
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.51
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.49
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.49
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.49
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.47
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.46
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.45
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.41
PHA02544	316	44 clamp loader, small subunit; Provisional	98.39
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.38
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.38
CHL00095	821	clpC Clp protease ATP binding subunit	98.37
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.37
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.34
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.33
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.33
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.31
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.31
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.31
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.3
PRK10865	857	protein disaggregation chaperone; Provisional	98.3
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.3
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.29
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.28
PRK06620	214	hypothetical protein; Validated	98.26
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.25
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.24
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.23
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.22
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.21
PRK12422	445	chromosomal replication initiation protein; Provis	98.21
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.21
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.2
PRK07952	244	DNA replication protein DnaC; Validated	98.2
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.2
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.19
CHL00176	638	ftsH cell division protein; Validated	98.19
PF00004	132	AAA: ATPase family associated with various cellula	98.15
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.14
CHL00181	287	cbbX CbbX; Provisional	98.14
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.1
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.09
PRK12377	248	putative replication protein; Provisional	98.09
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.06
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.04
PRK08116	268	hypothetical protein; Validated	98.02
CHL00195	489	ycf46 Ycf46; Provisional	98.02
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.02
cd01128	249	rho_factor Transcription termination factor rho is	98.0
PRK09376	416	rho transcription termination factor Rho; Provisio	97.98
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.97
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.97
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.93
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.91
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.89
smart00382	148	AAA ATPases associated with a variety of cellular	97.87
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.86
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.84
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.84
PRK10536	262	hypothetical protein; Provisional	97.83
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.82
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.8
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.8
TIGR00767	415	rho transcription termination factor Rho. Members	97.79
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.75
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.75
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.73
PRK10865	857	protein disaggregation chaperone; Provisional	97.72
PRK08181	269	transposase; Validated	97.71
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.7
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.7
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.68
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.68
PRK09183	259	transposase/IS protein; Provisional	97.66
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.66
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.65
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.65
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.63
PRK06835	329	DNA replication protein DnaC; Validated	97.63
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.63
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.63
PRK06526	254	transposase; Provisional	97.63
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.62
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.6
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.6
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.6
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.58
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.58
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.56
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.56
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.55
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.54
PRK04132	846	replication factor C small subunit; Provisional	97.54
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.54
PRK09354	349	recA recombinase A; Provisional	97.53
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.52
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.52
PRK06921	266	hypothetical protein; Provisional	97.52
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.52
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.52
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.5
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.49
CHL00095	821	clpC Clp protease ATP binding subunit	97.49
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.46
PRK12608	380	transcription termination factor Rho; Provisional	97.45
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.45
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.45
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.44
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.44
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.44
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.43
PRK05541	176	adenylylsulfate kinase; Provisional	97.42
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.41
PRK06067	234	flagellar accessory protein FlaH; Validated	97.4
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.4
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.39
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.39
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.38
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.37
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.37
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.37
PRK08939	306	primosomal protein DnaI; Reviewed	97.36
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.35
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.34
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.34
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.33
PRK04296	190	thymidine kinase; Provisional	97.27
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.27
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.27
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.27
PRK06696	223	uridine kinase; Validated	97.25
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.25
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.24
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.22
PRK04328	249	hypothetical protein; Provisional	97.2
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.2
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.19
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.18
PRK07667	193	uridine kinase; Provisional	97.18
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.18
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.18
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.18
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.14
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.14
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.12
PHA00729	226	NTP-binding motif containing protein	97.1
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.1
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.1
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.1
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.08
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.06
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.05
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.04
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.04
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.03
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.03
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.02
PRK06762	166	hypothetical protein; Provisional	97.01
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.0
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.99
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.97
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.95
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.94
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.93
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.93
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.93
KOG3678	832	consensus SARM protein (with sterile alpha and arm	96.93
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.93
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.93
PRK00889	175	adenylylsulfate kinase; Provisional	96.92
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.92
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.92
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.91
PRK15455	644	PrkA family serine protein kinase; Provisional	96.91
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.89
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.89
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.88
PRK08118	167	topology modulation protein; Reviewed	96.87
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.83
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.81
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.81
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.8
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.8
PRK11823	446	DNA repair protein RadA; Provisional	96.8
CHL00206	2281	ycf2 Ycf2; Provisional	96.8
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.79
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.79
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.78
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	96.78
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.78
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.77
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.76
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.76
PTZ00494	664	tuzin-like protein; Provisional	96.75
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.75
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.75
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.75
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.75
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.74
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.73
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.72
cd03246	173	ABCC_Protease_Secretion This family represents the	96.72
PRK14974	336	cell division protein FtsY; Provisional	96.71
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.71
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.69
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.69
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.69
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.68
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.68
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.68
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.68
PRK07261	171	topology modulation protein; Provisional	96.67
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.64
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.64
PTZ00035	337	Rad51 protein; Provisional	96.64
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.64
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.64
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	96.63
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.62
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.62
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.61
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.61
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.6
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.59
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.59
PRK10436	462	hypothetical protein; Provisional	96.59
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.58
PTZ00301	210	uridine kinase; Provisional	96.58
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.57
COG0488	530	Uup ATPase components of ABC transporters with dup	96.57
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.57
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.57
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.56
COG4133	209	CcmA ABC-type transport system involved in cytochr	96.56
PRK08233	182	hypothetical protein; Provisional	96.56
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.56
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.56
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.55
PRK05480	209	uridine/cytidine kinase; Provisional	96.55
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.55
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.54
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.54
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.53
PRK13531	498	regulatory ATPase RavA; Provisional	96.53
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.53
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.52
COG3910	233	Predicted ATPase [General function prediction only	96.48
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.47
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.47
PRK05439	311	pantothenate kinase; Provisional	96.47
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.46
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.46
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.46
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.45
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	96.44
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.44
PRK03846	198	adenylylsulfate kinase; Provisional	96.43
PRK03839	180	putative kinase; Provisional	96.43
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.43
PRK04040	188	adenylate kinase; Provisional	96.43
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.42
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.41
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	96.41
PF07726	131	AAA_3: ATPase family associated with various cellu	96.41
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.4
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.4
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.38
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.38
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.37
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.37
PRK10867	433	signal recognition particle protein; Provisional	96.37
PRK00131	175	aroK shikimate kinase; Reviewed	96.36
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.34
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.34
PRK06547	172	hypothetical protein; Provisional	96.33
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.32
COG4240	300	Predicted kinase [General function prediction only	96.31
PRK00625	173	shikimate kinase; Provisional	96.3
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.29
PRK05973	237	replicative DNA helicase; Provisional	96.27
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.27
PRK09302	509	circadian clock protein KaiC; Reviewed	96.27
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.26
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.26
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.26
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.24
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.24
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.23
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.23
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.22
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.22
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.21
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.21
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.21
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	96.2
PRK00279	215	adk adenylate kinase; Reviewed	96.2
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.2
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.2
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.19
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.18
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.18
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.18
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.17
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.17
TIGR00959	428	ffh signal recognition particle protein. This mode	96.17
PTZ00088	229	adenylate kinase 1; Provisional	96.16
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.16
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.15
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.15
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	96.13
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.13
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.11
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.1
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	96.09
PRK15115	444	response regulator GlrR; Provisional	96.09
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.08
PRK14528	186	adenylate kinase; Provisional	96.08
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.06
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.05
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	96.03
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.03
PRK13947	171	shikimate kinase; Provisional	96.02
PRK10416	318	signal recognition particle-docking protein FtsY;	96.02
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.02
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.02
PRK14531	183	adenylate kinase; Provisional	96.01
PF13245	76	AAA_19: Part of AAA domain	96.0
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.0
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.0
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.0
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.99
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.98
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.97
PRK09302	509	circadian clock protein KaiC; Reviewed	95.97
PRK15453	290	phosphoribulokinase; Provisional	95.97
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	95.96
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.96
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.95
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.94
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.93
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.93
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.93
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.93
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.92
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.92
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.92
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.92
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	95.91
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.91
PRK13764	602	ATPase; Provisional	95.9
COG0488	530	Uup ATPase components of ABC transporters with dup	95.9
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.9
PRK06217	183	hypothetical protein; Validated	95.89
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.89
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.89
PHA02244	383	ATPase-like protein	95.86
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.86
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.85
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.84
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.84
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.83
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.83
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.83
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.82
COG0714	329	MoxR-like ATPases [General function prediction onl	95.82
PF13479	213	AAA_24: AAA domain	95.8
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.8
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	95.8
PRK14529	223	adenylate kinase; Provisional	95.79
PRK13833	323	conjugal transfer protein TrbB; Provisional	95.79
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.78
PRK12678	672	transcription termination factor Rho; Provisional	95.78
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	95.78
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.77
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.76
PRK14738	206	gmk guanylate kinase; Provisional	95.75
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	95.75
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.75
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.73
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.73
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.72
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.72
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.72
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.7
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	95.7
PRK13949	169	shikimate kinase; Provisional	95.7
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.69
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.69
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.69
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	95.69
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.68
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.67
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.66
PRK13948	182	shikimate kinase; Provisional	95.65
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.63
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.63
PRK14530	215	adenylate kinase; Provisional	95.63
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.63
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.63
PRK00409	782	recombination and DNA strand exchange inhibitor pr	95.62
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.61
PRK13765	637	ATP-dependent protease Lon; Provisional	95.61
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.6
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.59
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.58
PRK14527	191	adenylate kinase; Provisional	95.56
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.56
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.55
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	95.51
PRK15424	538	propionate catabolism operon regulatory protein Pr	95.51
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.5
PRK13946	184	shikimate kinase; Provisional	95.49
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	95.48
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.48
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.48
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.47
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	95.46
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	95.46
PLN02674	244	adenylate kinase	95.46
PLN02200	234	adenylate kinase family protein	95.45
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.45

>PLN03210 Resistant to P

Probab=100.00  E-value=3.1e-83  Score=711.34  Aligned_cols=472  Identities=39%  Similarity=0.745  Sum_probs=419.1

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCc-eEeee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQ-IFPIF   79 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~-v~Pvf   79 (483)
                      +|++|||+||.++||++|+|+ ++++|+.|.+++.+||++|+++|||||++|++|+|||+||++|++|++++++ |+|||
T Consensus        27 ~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~el~~i~~~~~~~~~~v~pvf  105 (1153)
T PLN03210         27 TFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELGQLVIPVF  105 (1153)
T ss_pred             CHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHHHHHHHHhhhhcCceEEEEE
Confidence            699999999999999999988 7999999999999999999999999999999999999999999999999999 99999


Q ss_pred             ecccCccccccchhhhhhhhhhHHHhhhhHHHHHHHHHHHHHHhhhcCCcccCCCCCchHHHH-----------------
Q 038919           80 YDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEIL-----------------  142 (483)
Q Consensus        80 ~~v~p~~vr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~~~~~g~~~~~~~~~~~~~~i-----------------  142 (483)
                      |+|+|+|||+|+|+|+++|.++....  ..+++++|++||+.+++++|+...  .+.+|++++                 
T Consensus       106 y~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~--~~~~E~~~i~~Iv~~v~~~l~~~~~~  181 (1153)
T PLN03210        106 YGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQ--NWPNEAKMIEEIANDVLGKLNLTPSN  181 (1153)
T ss_pred             ecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecC--CCCCHHHHHHHHHHHHHHhhccccCc
Confidence            99999999999999999999887643  356799999999999999999432  245677665                 


Q ss_pred             --HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec--ccc---cc-----cC
Q 038919          143 --KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV--KEK---YD-----KE  210 (483)
Q Consensus       143 --~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~---~~-----~~  210 (483)
                        +++|||+.+++++..+|....+++++++|+||||+||||||+++|+++...|++.+|+.+.  ...   ..     ..
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~  261 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDY  261 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhccccccccc
Confidence              5789999999999999987777899999999999999999999999999999998887542  111   00     11


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          211 GSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       211 ~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      .....++.+++..++.........    ...+++.++++++||||||||+.++++.+.....|+++|++||||||++.++
T Consensus       262 ~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl  337 (1153)
T PLN03210        262 NMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFL  337 (1153)
T ss_pred             chhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHH
Confidence            112345666666665543322222    2457788999999999999999999999988888889999999999999998


Q ss_pred             hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhccC
Q 038919          291 KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKRE  370 (483)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~~  370 (483)
                      ...+...+|+++.|+.++|++||+++||+...+++.+.+++++|+++|+|+||||+++|++|++++..+|+..++++...
T Consensus       338 ~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~  417 (1153)
T PLN03210        338 RAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNG  417 (1153)
T ss_pred             HhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhC
Confidence            87777789999999999999999999998877777889999999999999999999999999999999999999999988


Q ss_pred             CCccHHHHHHHhhcCCcH-HHHHHHhhhhcCCCCCCHHHHHHHHHhCCCChhhhHHHHhhCCceeEecCCeEEccHHHHH
Q 038919          371 PENEILDILQISFDGLKE-AEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLE  449 (483)
Q Consensus       371 ~~~~v~~~l~~s~~~L~~-~~k~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~~~~mH~lvr~  449 (483)
                      .+..+..+|+.||+.|++ .+|.+|+++|||+.+.+.+.+..++..++..+..+++.|+++|||+.. .+++.||+|+|+
T Consensus       418 ~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~  496 (1153)
T PLN03210        418 LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQE  496 (1153)
T ss_pred             ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHH
Confidence            888999999999999986 599999999999999999999999988888888899999999999987 678999999999


Q ss_pred             HHHHHHhhhCCCCCCCccccccCchHHHHhccCC
Q 038919          450 MGRQIVRRQSPREPGKRSRLWEEADLCHVLSQNT  483 (483)
Q Consensus       450 ~~~~~~~~~~~~~~~~r~rl~~~~~~~~~l~~~~  483 (483)
                      ||++++++++ .+|++|+|+|+++||++||++++
T Consensus       497 ~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~  529 (1153)
T PLN03210        497 MGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT  529 (1153)
T ss_pred             HHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCc
Confidence            9999999998 78999999999999999998764

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.7e-41  Score=355.22  Aligned_cols=304  Identities=32%  Similarity=0.425  Sum_probs=260.1

Q ss_pred             hchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH---hhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          146 VGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL---ISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       146 vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ||.+..++.+.+.|.....  ++++|+||||+||||||++++++   +..+|+..+|+. +++   .... ..++.+++.
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 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV-VSK---EFTT-RKIQQTILE  233 (889)
T ss_pred             ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE-Ecc---cccH-HhHHHHHHH
Confidence            9999999999999986533  89999999999999999999985   567899999987 333   3444 888888888


Q ss_pred             HHhcccCCC-ccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh-CCCcceEe
Q 038919          223 DLLKLADNS-IRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKL-HRVEEVFK  300 (483)
Q Consensus       223 ~~~~~~~~~-~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~-~~~~~~~~  300 (483)
                      .+....... ..+..+....+.+.|.++|++|||||||+...|+.+..+++....||+|++|||+..++.. ++....++
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            765533222 2234677888999999999999999999999999999888877788999999999999988 77778899


Q ss_pred             cCCCChHHHHHHHHHhhccCC-CCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC-CHHHHHHHHHHhccC-------C
Q 038919          301 LEALTYDEAFQLFCLKAFETQ-KPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR-PVDEWTSTLERLKRE-------P  371 (483)
Q Consensus       301 l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~-~~~~~~~~l~~l~~~-------~  371 (483)
                      ++.|+.+|||.||++.++... ...+..++++++++++|+|+|||+.++|..++.+ +..+|..+...+...       .
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            999999999999999998763 3334478999999999999999999999999884 567999999987553       1


Q ss_pred             CccHHHHHHHhhcCCcHHHHHHHhhhhcCCCC--CCHHHHHHHHHhCCCC------------hhhhHHHHhhCCceeEec
Q 038919          372 ENEILDILQISFDGLKEAEKEIFLDVACFFKG--EKRDYVSKILDSCGFE------------PVIGIGVLIEKSLLTICE  437 (483)
Q Consensus       372 ~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~--~~~~~l~~~~~~~~~~------------~~~~l~~L~~~sLi~~~~  437 (483)
                      .+.+..++..||+.|+++.|.||+|||.||.+  ++.+.+..+|.++|+.            ....+.+|++++|+....
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            46788999999999999999999999999988  6899999999999843            345799999999998764


Q ss_pred             C----CeEEccHHHHHHHHHHHh
Q 038919          438 S----DRLWMHDLLLEMGRQIVR  456 (483)
Q Consensus       438 ~----~~~~mH~lvr~~~~~~~~  456 (483)
                      .    ..+.|||+||++|..++.
T Consensus       474 ~~~~~~~~kmHDvvRe~al~ias  496 (889)
T KOG4658|consen  474 DEGRKETVKMHDVVREMALWIAS  496 (889)
T ss_pred             cccceeEEEeeHHHHHHHHHHhc
Confidence            2    569999999999999998

>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=1.5e-38  Score=304.64  Aligned_cols=268  Identities=32%  Similarity=0.512  Sum_probs=208.7

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH--hhcccceeEEEEecccccccCCcHHHHHHHHHHHHh
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL--ISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLL  225 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~  225 (483)
                      |+.++++|.+.|...+++.++|+|+||||+||||||.+++++  +..+|+..+|+. +..   .... ..++..++..+.
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~-~~~---~~~~-~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVS-LSK---NPSL-EQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEE-EES----SCC-HHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccc-ccc---cccc-cccccccccccc
Confidence            789999999999976678999999999999999999999988  888997777765 332   2333 777888887765


Q ss_pred             cccCC--CccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCC-cceEecC
Q 038919          226 KLADN--SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRV-EEVFKLE  302 (483)
Q Consensus       226 ~~~~~--~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~-~~~~~l~  302 (483)
                      .....  ...+.......+.+.+.++++|||||||++...++.+...+.....|++||||||+..+...... ...++|+
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            55332  45667778899999999999999999999999998887766666779999999999987765443 6789999


Q ss_pred             CCChHHHHHHHHHhhccCC-CCCchHHHHHHHHHHHhCCChHHHHHHHHHhCC-CCHHHHHHHHHHhccCC------Ccc
Q 038919          303 ALTYDEAFQLFCLKAFETQ-KPREEYVHLSQLVVNYAGGLPLALKVLGSFLFG-RPVDEWTSTLERLKREP------ENE  374 (483)
Q Consensus       303 ~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~-~~~~~~~~~l~~l~~~~------~~~  374 (483)
                      +|+.+||++||.+.++... ...+...+.+++|++.|+|+||||+++|++++. .+..+|...++.+....      ...
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            9999999999999987655 233344577899999999999999999999954 35678999888765432      467


Q ss_pred             HHHHHHHhhcCCcHHHHHHHhhhhcCCCC--CCHHHHHHHHHhCCCCh
Q 038919          375 ILDILQISFDGLKEAEKEIFLDVACFFKG--EKRDYVSKILDSCGFEP  420 (483)
Q Consensus       375 v~~~l~~s~~~L~~~~k~~l~~la~f~~~--~~~~~l~~~~~~~~~~~  420 (483)
                      +..++..||+.|+++.|.||.+||+||.+  ++.+.+..+|.++++..
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  57999999998876643

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.

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=1.3e-33  Score=238.78  Aligned_cols=130  Identities=26%  Similarity=0.439  Sum_probs=114.1

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCceEeeee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQIFPIFY   80 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~v~Pvf~   80 (483)
                      +|++||+++|+++||+||+|++++++|+.|.+.|.+||++|+++|||||++|++|+|||+||++|++|+.   .|+||||
T Consensus        41 ~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I~e~~~---~ViPIFY  117 (187)
T PLN03194         41 TIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALIMESKK---RVIPIFC  117 (187)
T ss_pred             cHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHHHHcCC---EEEEEEe
Confidence            6999999999999999999999999999999999999999999999999999999999999999998742   2999999


Q ss_pred             cccCcccccc-chhhhhhhhhhHHHhhhhHHHHHHHHHHHHHHhhhcCCcccCCCCCchHHHHHhhhc
Q 038919           81 DVEPTVVRKQ-TTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELVG  147 (483)
Q Consensus        81 ~v~p~~vr~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~~~~~g~~~~~~~~~~~~~~i~~~vG  147 (483)
                      +|+|++||+| .|.             ...+++++|++||+.+++++|+.... ..+++++++...|+
T Consensus       118 ~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~~-~~~~e~e~i~~iv~  171 (187)
T PLN03194        118 DVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFDS-LKGNWSEVVTMASD  171 (187)
T ss_pred             cCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCCC-CCCCHHHHHHHHHH
Confidence            9999999997 332             12467999999999999999984432 24568888876664

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.77  E-value=7.5e-17  Score=178.81  Aligned_cols=292  Identities=16%  Similarity=0.176  Sum_probs=185.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..+|-|..-++.+..     ....+++.|+|++|.||||++.+++++.    +.+.|+ .+......   ...+...++.
T Consensus        14 ~~~~~R~rl~~~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~-~l~~~d~~---~~~f~~~l~~   80 (903)
T PRK04841         14 HNTVVRERLLAKLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWY-SLDESDNQ---PERFASYLIA   80 (903)
T ss_pred             cccCcchHHHHHHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEE-ecCcccCC---HHHHHHHHHH
Confidence            467778766665543     2346899999999999999999998642    345666 34432221   1333344444


Q ss_pred             HHhcccCC------------CccchhhhHHHHHHHHh--cCceEEEEcCCCCH------HHHHHHhcCCCCCCCCcEEEE
Q 038919          223 DLLKLADN------------SIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV------EQLRRLAGKRDWFGPGSRIII  282 (483)
Q Consensus       223 ~~~~~~~~------------~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~------~~~~~l~~~~~~~~~~~~ili  282 (483)
                      .+......            ...+.......+...+.  +.+++|||||+...      +.+..++...   .++.++||
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~---~~~~~lv~  157 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQ---PENLTLVV  157 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhC---CCCeEEEE
Confidence            43211110            01122223333333333  68999999999543      2444444442   56788989


Q ss_pred             EcCCHhHHhh---CCCcceEecC----CCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC
Q 038919          283 TTRDEHLLKL---HRVEEVFKLE----ALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR  355 (483)
Q Consensus       283 TtR~~~~~~~---~~~~~~~~l~----~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~  355 (483)
                      |||.......   .......++.    +|+.+|+.+||....+..     ...+.+.++++.|+|+|+++..++..+...
T Consensus       158 ~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~-----~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~  232 (903)
T PRK04841        158 LSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP-----IEAAESSRLCDDVEGWATALQLIALSARQN  232 (903)
T ss_pred             EeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC-----CCHHHHHHHHHHhCChHHHHHHHHHHHhhC
Confidence            9997422211   0112344555    999999999998765332     123557889999999999999998777543


Q ss_pred             CHHHHHHHHHHhccCCCccHHHHHHH-hhcCCcHHHHHHHhhhhcCCCCCCHHHHHHHHHhCCCChhhhHHHHhhCCcee
Q 038919          356 PVDEWTSTLERLKREPENEILDILQI-SFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLT  434 (483)
Q Consensus       356 ~~~~~~~~l~~l~~~~~~~v~~~l~~-s~~~L~~~~k~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~  434 (483)
                      ... .......+....+..+...+.. .++.||++.+.++..+|+++ .++.+.+..+..  ..+....++.|.+.+|+.
T Consensus       233 ~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~--~~~~~~~L~~l~~~~l~~  308 (903)
T PRK04841        233 NSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTG--EENGQMRLEELERQGLFI  308 (903)
T ss_pred             CCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcC--CCcHHHHHHHHHHCCCee
Confidence            210 1111222222223456665544 48999999999999999986 777776666653  334578899999999965


Q ss_pred             E-ec--CCeEEccHHHHHHHHHHHhhhC
Q 038919          435 I-CE--SDRLWMHDLLLEMGRQIVRRQS  459 (483)
Q Consensus       435 ~-~~--~~~~~mH~lvr~~~~~~~~~~~  459 (483)
                      . .+  ..+|++|++++++.++.+..+.
T Consensus       309 ~~~~~~~~~yr~H~L~r~~l~~~l~~~~  336 (903)
T PRK04841        309 QRMDDSGEWFRYHPLFASFLRHRCQWEL  336 (903)
T ss_pred             EeecCCCCEEehhHHHHHHHHHHHHhcC
Confidence            3 22  2379999999999999986553

>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo

Probab=99.75  E-value=6.5e-19  Score=149.33  Aligned_cols=119  Identities=39%  Similarity=0.618  Sum_probs=103.5

Q ss_pred             chhhHHHHHHhC--CCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCC--c-eE
Q 038919            2 FISHLYTALNDK--GIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNRED--Q-IF   76 (483)
Q Consensus         2 f~~~L~~~L~~~--gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~--~-v~   76 (483)
                      |+++|..+|++.  |+++|++++++.+|..+.+++.++|++|+++|+|||++|++|.||+.|+..++++....+  . |+
T Consensus        14 ~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~~~~~~~~~~~~Il   93 (141)
T PF01582_consen   14 FVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEALERLLEEGRDKLIL   93 (141)
T ss_dssp             HHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHHHHHHCSTCTTEEE
T ss_pred             HHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhhhhcccccccccee
Confidence            789999999999  999999999999999999999999999999999999999999999999999999987755  4 99


Q ss_pred             eeeecccCcccc-ccchhhhhhhhhhHHHhhhh--HHHHHHHHHHHH
Q 038919           77 PIFYDVEPTVVR-KQTTSFGEAFTKHEEFFRDN--IEKVQKWRHALK  120 (483)
Q Consensus        77 Pvf~~v~p~~vr-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~al~  120 (483)
                      |+||++.+.+++ .+.+.+...+..+.....+.  .+....|++++.
T Consensus        94 ~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   94 PVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             EESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             eEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence            999999999999 68888888887765555443  456778887653

In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.65  E-value=4.4e-15  Score=159.41  Aligned_cols=325  Identities=16%  Similarity=0.228  Sum_probs=197.4

Q ss_pred             hhhchhHHHHHHHHHhhcC-CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc---ccCCcHHHHHHH
Q 038919          144 ELVGIESRLEKLKFLMGAG-CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY---DKEGSVISLQKQ  219 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~-~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~---~~~~~~~~l~~~  219 (483)
                      .++||+.+++.|...+... .+...++.+.|.+|||||+|+.++...+...+  ..++...-...   .+...+....+.
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~--~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQR--GYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccc--eeeeHhhcccccCCCchHHHHHHHHH
Confidence            3789999999999988763 33467999999999999999999999877652  22221111111   111122233333


Q ss_pred             HHHHHhcccCCCc----------------------------------------cchhh-----hHHHHHHHHh-cCceEE
Q 038919          220 LISDLLKLADNSI----------------------------------------RNVYD-----GINMIGRRLR-QKKVLL  253 (483)
Q Consensus       220 ll~~~~~~~~~~~----------------------------------------~~~~~-----~~~~l~~~l~-~~~~Ll  253 (483)
                      +..+++.......                                        .....     ....+..... .+|.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            3333222111000                                        00000     1112222223 469999


Q ss_pred             EEcCCC--CH---HHHHHHhcCCC--CC-CCCcEEEEEcCCH--hHHhhCCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          254 VIDDVA--HV---EQLRRLAGKRD--WF-GPGSRIIITTRDE--HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       254 VlDdv~--~~---~~~~~l~~~~~--~~-~~~~~iliTtR~~--~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      |+||+.  |.   .-++.++....  .+ ......+.|.+..  .+.......+.+.|.||+..+...+...........
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~  238 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL  238 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc
Confidence            999993  22   33444443321  00 0112222333322  222233345689999999999999999888553322


Q ss_pred             CchHHHHHHHHHHHhCCChHHHHHHHHHhCCC-------CHHHHHHHHHHhccCC-CccHHHHHHHhhcCCcHHHHHHHh
Q 038919          324 REEYVHLSQLVVNYAGGLPLALKVLGSFLFGR-------PVDEWTSTLERLKREP-ENEILDILQISFDGLKEAEKEIFL  395 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~-------~~~~~~~~l~~l~~~~-~~~v~~~l~~s~~~L~~~~k~~l~  395 (483)
                         ..+..+.|++++.|||+++.++-..+...       +...|..-...+.... ...+.+.+...++.||...|+++.
T Consensus       239 ---~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~  315 (849)
T COG3899         239 ---PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLK  315 (849)
T ss_pred             ---cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHH
Confidence               23668899999999999999999988653       3445655544443321 233666799999999999999999


Q ss_pred             hhhcCCCCCCHHHHHHHHHhCCCChhhhHHHHhhCCceeEec--------CCe--E-EccHHHHHHHHHHHhhhCCCCCC
Q 038919          396 DVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICE--------SDR--L-WMHDLLLEMGRQIVRRQSPREPG  464 (483)
Q Consensus       396 ~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~--------~~~--~-~mH~lvr~~~~~~~~~~~~~~~~  464 (483)
                      .+||+++.|+.+.+..++..........+-.....++|...+        ...  | ..|++||+.+...+.++.     
T Consensus       316 ~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~~-----  390 (849)
T COG3899         316 AAACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPESQ-----  390 (849)
T ss_pred             HHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchhh-----
Confidence            999999999999999998754433333344444445554321        111  2 469999999987766543     


Q ss_pred             CccccccCchHHHHhcc
Q 038919          465 KRSRLWEEADLCHVLSQ  481 (483)
Q Consensus       465 ~r~rl~~~~~~~~~l~~  481 (483)
                         |--.|..|...|..
T Consensus       391 ---rq~~H~~i~~lL~~  404 (849)
T COG3899         391 ---RQYLHLRIGQLLEQ  404 (849)
T ss_pred             ---HHHHHHHHHHHHHH
Confidence               33445555555543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.58  E-value=9.8e-13  Score=131.76  Aligned_cols=283  Identities=16%  Similarity=0.149  Sum_probs=166.5

Q ss_pred             HhhhchhHHHHHHHHHhhcC--CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc-ceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG--CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF-DGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +.|+||+.++++|...+...  ....+.+.|+|++|+|||++++.+++.+.... ...+.+.++....   .. ..++..
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~---~~-~~~~~~  105 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDR---TR-YAIFSE  105 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCC---CH-HHHHHH
Confidence            57999999999999988542  23346688999999999999999999876554 2223333333222   22 566667


Q ss_pred             HHHHHhcccC-CCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH------HHHHHhcCCCCCC-CCcEEEEEcCCHhH
Q 038919          220 LISDLLKLAD-NSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE------QLRRLAGKRDWFG-PGSRIIITTRDEHL  289 (483)
Q Consensus       220 ll~~~~~~~~-~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~------~~~~l~~~~~~~~-~~~~iliTtR~~~~  289 (483)
                      ++..+.+... ....+.......+.+.+.  +++++||||+++...      .+..+........ .+..+|.++.+..+
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~  185 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTF  185 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcch
Confidence            7776654221 122234555566666665  456899999997643      4555544322111 12335555554432


Q ss_pred             HhhC-------CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHh----CCChHHHHHHHHHh-----C
Q 038919          290 LKLH-------RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA----GGLPLALKVLGSFL-----F  353 (483)
Q Consensus       290 ~~~~-------~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~----~G~PLal~~la~~l-----~  353 (483)
                      ....       -....+.+++++.++..+++..++.....+.....+.++.+++.+    |..+.|+..+-...     .
T Consensus       186 ~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~  265 (394)
T PRK00411        186 LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAERE  265 (394)
T ss_pred             hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHc
Confidence            2211       112467899999999999998876322111111223344444444    55667776654322     1


Q ss_pred             C---CCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC----CCCCHHHHHHH----HHhCCCC---
Q 038919          354 G---RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF----KGEKRDYVSKI----LDSCGFE---  419 (483)
Q Consensus       354 ~---~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~----~~~~~~~l~~~----~~~~~~~---  419 (483)
                      +   -+...+..+....       -.......+..||.++|.++..++...    ..++...+...    ....+..   
T Consensus       266 ~~~~I~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~  338 (394)
T PRK00411        266 GSRKVTEEDVRKAYEKS-------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRT  338 (394)
T ss_pred             CCCCcCHHHHHHHHHHH-------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCc
Confidence            1   1344455555544       123345678899999999998877553    23444444322    2222222   


Q ss_pred             ---hhhhHHHHhhCCceeEe
Q 038919          420 ---PVIGIGVLIEKSLLTIC  436 (483)
Q Consensus       420 ---~~~~l~~L~~~sLi~~~  436 (483)
                         ....+..|...|||...
T Consensus       339 ~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        339 HTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             HHHHHHHHHHHHhcCCeEEE
Confidence               34578999999999864

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.57  E-value=4e-13  Score=137.33  Aligned_cols=294  Identities=19%  Similarity=0.220  Sum_probs=189.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      .+.|-|..-++.|.+.     .+.+.+.|..|+|.|||||+.+++.. ...-..+.|+. +.+.   .+-.......++.
T Consensus        19 ~~~v~R~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~~-~~~~~~v~Wls-lde~---dndp~rF~~yLi~   88 (894)
T COG2909          19 DNYVVRPRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWREL-AADGAAVAWLS-LDES---DNDPARFLSYLIA   88 (894)
T ss_pred             ccccccHHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHHh-cCcccceeEee-cCCc---cCCHHHHHHHHHH
Confidence            5677777666665542     34799999999999999999999983 33445566665 3322   2222555555555


Q ss_pred             HHhcccCCC------------ccchhhhHHHHHHHHh--cCceEEEEcCCC---CH---HHHHHHhcCCCCCCCCcEEEE
Q 038919          223 DLLKLADNS------------IRNVYDGINMIGRRLR--QKKVLLVIDDVA---HV---EQLRRLAGKRDWFGPGSRIII  282 (483)
Q Consensus       223 ~~~~~~~~~------------~~~~~~~~~~l~~~l~--~~~~LlVlDdv~---~~---~~~~~l~~~~~~~~~~~~ili  282 (483)
                      .+....+..            ..+....+..+...+.  .+|+.+||||..   ++   ..++.|+...   +++..+++
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~---P~~l~lvv  165 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHA---PENLTLVV  165 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhC---CCCeEEEE
Confidence            543222111            1233334445555444  479999999994   22   4566666654   57899999


Q ss_pred             EcCCHhHHhhCC---CcceEecC----CCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC
Q 038919          283 TTRDEHLLKLHR---VEEVFKLE----ALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR  355 (483)
Q Consensus       283 TtR~~~~~~~~~---~~~~~~l~----~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~  355 (483)
                      |||+...+....   .+..++++    .|+.+|+.++|......     +.....++.+.+.++|.+-||..++-.+++.
T Consensus       166 ~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l-----~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~  240 (894)
T COG2909         166 TSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSL-----PLDAADLKALYDRTEGWAAALQLIALALRNN  240 (894)
T ss_pred             EeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCC-----CCChHHHHHHHhhcccHHHHHHHHHHHccCC
Confidence            999764322111   12233443    48999999999877522     1223458889999999999999998888732


Q ss_pred             -CHHHHHHHHHHhccCCCccHHH-HHHHhhcCCcHHHHHHHhhhhcCCCCCCHHHHHHHHHhCCCChhhhHHHHhhCCce
Q 038919          356 -PVDEWTSTLERLKREPENEILD-ILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLL  433 (483)
Q Consensus       356 -~~~~~~~~l~~l~~~~~~~v~~-~l~~s~~~L~~~~k~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi  433 (483)
                       +...-   ...+... ...+.+ ..+.-++.||++.|.++..+|++. .+..+....+.  ...+....|++|.+++|.
T Consensus       241 ~~~~q~---~~~LsG~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~-~f~~eL~~~Lt--g~~ng~amLe~L~~~gLF  313 (894)
T COG2909         241 TSAEQS---LRGLSGA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLS-RFNDELCNALT--GEENGQAMLEELERRGLF  313 (894)
T ss_pred             CcHHHH---hhhccch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH-HhhHHHHHHHh--cCCcHHHHHHHHHhCCCc
Confidence             22211   1111111 223333 445678999999999999999974 23333333333  234456679999999997


Q ss_pred             eE---ecCCeEEccHHHHHHHHHHHhhhCCC
Q 038919          434 TI---CESDRLWMHDLLLEMGRQIVRRQSPR  461 (483)
Q Consensus       434 ~~---~~~~~~~mH~lvr~~~~~~~~~~~~~  461 (483)
                      -+   +++++|++|.++.+|.+...+.+.+.
T Consensus       314 l~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~  344 (894)
T COG2909         314 LQRLDDEGQWFRYHHLFAEFLRQRLQRELAA  344 (894)
T ss_pred             eeeecCCCceeehhHHHHHHHHhhhccccCC
Confidence            53   23678999999999999999876543

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.55  E-value=2.3e-14  Score=121.57  Aligned_cols=119  Identities=41%  Similarity=0.677  Sum_probs=95.6

Q ss_pred             chhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhc-CCc-eEeee
Q 038919            2 FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNR-EDQ-IFPIF   79 (483)
Q Consensus         2 f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~-~~~-v~Pvf   79 (483)
                      |+.+|.++|...|+.+|.|++....|. . .+|.++|++|+++|+|+|++|..|.||..|+..++.+... ... +|||+
T Consensus        18 ~v~~L~~~l~~~~~~v~~d~~~~~~~~-~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a~~~~~~~~~~~iIPI~   95 (140)
T smart00255       18 FLSHLLEKLRGYGLCVFIDDFEPGGGD-L-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAALENALEEGGLRVIPIF   95 (140)
T ss_pred             HHHHHHHHhhcCCcEEEecCcccccch-H-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHHHHHHHHcCCCeEEEEE
Confidence            788999999999999999985433333 3 4999999999999999999999999999999999987765 345 99999


Q ss_pred             ecccCccccccchhhhhhhhhhHHHhhhhHHHHHHHHHHHHHHh
Q 038919           80 YDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVA  123 (483)
Q Consensus        80 ~~v~p~~vr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~~  123 (483)
                      ++..|..+..+.+.+...+..+..+....... ..|++.+..+.
T Consensus        96 ~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~  138 (140)
T smart00255       96 YEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVP  138 (140)
T ss_pred             EecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhc
Confidence            99999889888888888887763333333222 67888776553

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.52  E-value=8.3e-13  Score=127.47  Aligned_cols=274  Identities=17%  Similarity=0.125  Sum_probs=153.7

Q ss_pred             HhhhchhHHHHHHHHHhhcC---CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG---CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..|||++..++.|..++...   ....+.+.|+|++|+|||+||+.+++.+...+    ........    .. ......
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~----~~~~~~~~----~~-~~~l~~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL----KITSGPAL----EK-PGDLAA   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCE----EEeccchh----cC-chhHHH
Confidence            57999999999999888631   22355688999999999999999999775432    11111000    00 111111


Q ss_pred             HHHHHhcccCCCccch----hhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhC--
Q 038919          220 LISDLLKLADNSIRNV----YDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLH--  293 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~----~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~--  293 (483)
                      .+..+....-.-.++.    ....+.+...+.+.+..+|+++..+..++...      ..+.+-|..||+...+....  
T Consensus        75 ~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~------~~~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        75 ILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLD------LPPFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeec------CCCeEEEEecCCccccCHHHHh
Confidence            1111100000000000    00111222223333333333333222222111      12344455667754332211  


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhcc--CC
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKR--EP  371 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~--~~  371 (483)
                      .....+.+++++.++..+++.+.+.....  ....+.+..|++.|+|.|..+..++..+.       ... .....  ..
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~--~~~~~al~~ia~~~~G~pR~~~~ll~~~~-------~~a-~~~~~~~it  218 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNV--EIEPEAALEIARRSRGTPRIANRLLRRVR-------DFA-QVRGQKIIN  218 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHHhCCCcchHHHHHHHHH-------HHH-HHcCCCCcC
Confidence            12346789999999999999988754322  23346778899999999977765554331       000 00000  00


Q ss_pred             C---ccHHHHHHHhhcCCcHHHHHHHh-hhhcCCC-CCCHHHHHHHHHhCCCChhhhHH-HHhhCCceeEecCCeE
Q 038919          372 E---NEILDILQISFDGLKEAEKEIFL-DVACFFK-GEKRDYVSKILDSCGFEPVIGIG-VLIEKSLLTICESDRL  441 (483)
Q Consensus       372 ~---~~v~~~l~~s~~~L~~~~k~~l~-~la~f~~-~~~~~~l~~~~~~~~~~~~~~l~-~L~~~sLi~~~~~~~~  441 (483)
                      .   ......+...+..+++.++..|. .++.+.. +++.+.+...+..+.......++ .|++++||...+.|++
T Consensus       219 ~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~~  294 (305)
T TIGR00635       219 RDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRI  294 (305)
T ss_pred             HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchhh
Confidence            0   11122245567889998888887 4455543 37888888888888888888888 6999999986655553

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.50  E-value=2e-11  Score=121.04  Aligned_cols=284  Identities=15%  Similarity=0.112  Sum_probs=161.3

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc-----eeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD-----GSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~~~~  215 (483)
                      +.|+||+.++++|...+..  .....+.+.|+|++|+|||++++.+++.+.....     ..+.+.++....   .. ..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~---~~-~~   90 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILD---TL-YQ   90 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCC---CH-HH
Confidence            4799999999999998864  1233567999999999999999999987754322     233333333222   22 56


Q ss_pred             HHHHHHHHHhc--ccCC-CccchhhhHHHHHHHHh--cCceEEEEcCCCCH-----HHHHHHhcCC--CCC-CCCcEEEE
Q 038919          216 LQKQLISDLLK--LADN-SIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV-----EQLRRLAGKR--DWF-GPGSRIII  282 (483)
Q Consensus       216 l~~~ll~~~~~--~~~~-~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~-----~~~~~l~~~~--~~~-~~~~~ili  282 (483)
                      ++..++..+..  .... ...+..+....+.+.+.  +++++||||+++..     +.+..+....  ... +....+|.
T Consensus        91 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~  170 (365)
T TIGR02928        91 VLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIG  170 (365)
T ss_pred             HHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEE
Confidence            66666666542  1111 11223344445555553  56789999999765     2233443321  111 12334555


Q ss_pred             EcCCHhHHhhC------C-CcceEecCCCChHHHHHHHHHhhcc---CCCCCchHHHHHHHHHHHhCCChHHHHHHHHH-
Q 038919          283 TTRDEHLLKLH------R-VEEVFKLEALTYDEAFQLFCLKAFE---TQKPREEYVHLSQLVVNYAGGLPLALKVLGSF-  351 (483)
Q Consensus       283 TtR~~~~~~~~------~-~~~~~~l~~L~~~ea~~L~~~~~~~---~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~-  351 (483)
                      ++.........      . ....+.++|++.++..+++..++..   .....+...+.+..++..+.|.|..+..+... 
T Consensus       171 i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a  250 (365)
T TIGR02928       171 ISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVA  250 (365)
T ss_pred             EECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            55433321111      1 1246889999999999999988641   11222333345566777778988544332211 


Q ss_pred             h-----CC---CCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCC----CCCHHHHHH----HHHh
Q 038919          352 L-----FG---RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFK----GEKRDYVSK----ILDS  415 (483)
Q Consensus       352 l-----~~---~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~----~~~~~~l~~----~~~~  415 (483)
                      .     .+   -+......+...+.       ......++..||.+++.++..++....    .+....+..    +...
T Consensus       251 ~~~a~~~~~~~it~~~v~~a~~~~~-------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~  323 (365)
T TIGR02928       251 GEIAEREGAERVTEDHVEKAQEKIE-------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCED  323 (365)
T ss_pred             HHHHHHcCCCCCCHHHHHHHHHHHH-------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHh
Confidence            1     11   12333444433331       234456778999999988877664321    233333332    1111


Q ss_pred             CCC------ChhhhHHHHhhCCceeEec
Q 038919          416 CGF------EPVIGIGVLIEKSLLTICE  437 (483)
Q Consensus       416 ~~~------~~~~~l~~L~~~sLi~~~~  437 (483)
                      .+.      .....+..|...|||+...
T Consensus       324 ~~~~~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       324 IGVDPLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             cCCCCCcHHHHHHHHHHHHhcCCeEEEE
Confidence            121      1344689999999999753

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.47  E-value=1.3e-12  Score=126.99  Aligned_cols=259  Identities=19%  Similarity=0.156  Sum_probs=154.7

Q ss_pred             HHhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ...|+|++..++.+..++..   .....+.+.|+|++|+|||+||+.+++.+...+.    ...... ..   . ...+.
T Consensus        24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~----~~~~~~-~~---~-~~~l~   94 (328)
T PRK00080         24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR----ITSGPA-LE---K-PGDLA   94 (328)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE----EEeccc-cc---C-hHHHH
Confidence            47899999999999887753   2233567899999999999999999998764321    111100 00   0 11111


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH--HHHHHhcCCC-------------------CCCCC
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE--QLRRLAGKRD-------------------WFGPG  277 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~~~-------------------~~~~~  277 (483)
                      .++..+                       +...+|++|+++...  ..+.+...+.                   ...+.
T Consensus        95 ~~l~~l-----------------------~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~  151 (328)
T PRK00080         95 AILTNL-----------------------EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPF  151 (328)
T ss_pred             HHHHhc-----------------------ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCc
Confidence            111111                       223456666664221  1111110000                   00223


Q ss_pred             cEEEEEcCCHhHHhhC--CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC
Q 038919          278 SRIIITTRDEHLLKLH--RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR  355 (483)
Q Consensus       278 ~~iliTtR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~  355 (483)
                      +-|..|++...+....  .....+++++++.++..+++.+.+......  ...+.+..|++.|+|.|-.+..+...+.  
T Consensus       152 ~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~~--  227 (328)
T PRK00080        152 TLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRVR--  227 (328)
T ss_pred             eEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHHH--
Confidence            4455566644332211  123468999999999999999887554322  3346789999999999976665554331  


Q ss_pred             CHHHHHHHHHHhccCCC---ccHHHHHHHhhcCCcHHHHHHHh-hhhcCCC-CCCHHHHHHHHHhCCCChhhhHH-HHhh
Q 038919          356 PVDEWTSTLERLKREPE---NEILDILQISFDGLKEAEKEIFL-DVACFFK-GEKRDYVSKILDSCGFEPVIGIG-VLIE  429 (483)
Q Consensus       356 ~~~~~~~~l~~l~~~~~---~~v~~~l~~s~~~L~~~~k~~l~-~la~f~~-~~~~~~l~~~~~~~~~~~~~~l~-~L~~  429 (483)
                         .|.... .-.....   ......+...+..|++..+..+. .+..|.. ++..+.+...+..+....+..++ .|++
T Consensus       228 ---~~a~~~-~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        228 ---DFAQVK-GDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQ  303 (328)
T ss_pred             ---HHHHHc-CCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHH
Confidence               111110 0000001   11223345567789999988886 5566654 47899999988887777787888 9999


Q ss_pred             CCceeEecCCe
Q 038919          430 KSLLTICESDR  440 (483)
Q Consensus       430 ~sLi~~~~~~~  440 (483)
                      .+||+..+.|+
T Consensus       304 ~~li~~~~~gr  314 (328)
T PRK00080        304 QGFIQRTPRGR  314 (328)
T ss_pred             cCCcccCCchH
Confidence            99998665554

>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=99.47  E-value=1.6e-13  Score=127.09  Aligned_cols=194  Identities=23%  Similarity=0.238  Sum_probs=102.4

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH----
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL----  220 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l----  220 (483)
                      |+||+.+++.|.+++..+  ..+.+.|+|+.|+|||+|++++.+.........+|+.......      ......+    
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~------~~~~~~~~~~~   72 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESN------ESSLRSFIEET   72 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSH------HHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchh------hhHHHHHHHHH
Confidence            799999999999998853  3478999999999999999999998854433334443222111      1111111    


Q ss_pred             ------HHHHhcccC---------CCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH-----------HHHHHhcCCC
Q 038919          221 ------ISDLLKLAD---------NSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE-----------QLRRLAGKRD  272 (483)
Q Consensus       221 ------l~~~~~~~~---------~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-----------~~~~l~~~~~  272 (483)
                            ...+.....         ............+.+.+.  +++++||+||++...           .+..+.....
T Consensus        73 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (234)
T PF01637_consen   73 SLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL  152 (234)
T ss_dssp             HHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc
Confidence                  111111100         011222233333444443  345999999995433           2233333322


Q ss_pred             CCCCCcEEEEEcCCHhHHhh--------CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          273 WFGPGSRIIITTRDEHLLKL--------HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       273 ~~~~~~~iliTtR~~~~~~~--------~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      . .....+++++........        .+....+.|++|+.+++.+++.......... +...+..++++..+||+|..
T Consensus       153 ~-~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~  230 (234)
T PF01637_consen  153 S-QQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRY  230 (234)
T ss_dssp             ---TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHH
T ss_pred             c-cCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHH
Confidence            1 334445555554444332        2233459999999999999998865333111 12446679999999999999


Q ss_pred             HHHH
Q 038919          345 LKVL  348 (483)
Q Consensus       345 l~~l  348 (483)
                      |..+
T Consensus       231 l~~~  234 (234)
T PF01637_consen  231 LQEL  234 (234)
T ss_dssp             HHHH
T ss_pred             HhcC
Confidence            8753

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

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.30  E-value=3.3e-12  Score=121.33  Aligned_cols=283  Identities=20%  Similarity=0.266  Sum_probs=191.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ..+.+.++|.|||||||++-++.. +...|...+++.++....++...    ...+... +..   ...+-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v----~~~~ag~-~gl---~~~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALV----FPTLAGA-LGL---HVQPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHh----HHHHHhh-ccc---ccccchHHHHHHHH
Confidence            357899999999999999999999 88899999999888877665333    1111111 111   12222233445667


Q ss_pred             HHhcCceEEEEcCCCCH-HHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCCcceEecCCCChH-HHHHHHHHhhccCC-
Q 038919          245 RLRQKKVLLVIDDVAHV-EQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYD-EAFQLFCLKAFETQ-  321 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~-~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~~~~~~l~~L~~~-ea~~L~~~~~~~~~-  321 (483)
                      ...+++.++|+||.... ++...+...+...++...++.|+|....   ......+.+++|+.. ++.++|...+.... 
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            77899999999999765 3333333333333567778999996532   234556788888876 78899877653322 


Q ss_pred             --CCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHH----hccC------CCccHHHHHHHhhcCCcHH
Q 038919          322 --KPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLER----LKRE------PENEILDILQISFDGLKEA  389 (483)
Q Consensus       322 --~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~----l~~~------~~~~v~~~l~~s~~~L~~~  389 (483)
                        ............|.+...|.|++|+.+++..+.....+....+..    +...      ........+..||.-|+..
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              112233456788999999999999999999887665554443332    2222      1345667889999999999


Q ss_pred             HHHHHhhhhcCCCCCCHHHHHHHHHhCC-----CChhhhHHHHhhCCceeEec---CCeEEccHHHHHHHHHHHhhhC
Q 038919          390 EKEIFLDVACFFKGEKRDYVSKILDSCG-----FEPVIGIGVLIEKSLLTICE---SDRLWMHDLLLEMGRQIVRRQS  459 (483)
Q Consensus       390 ~k~~l~~la~f~~~~~~~~l~~~~~~~~-----~~~~~~l~~L~~~sLi~~~~---~~~~~mH~lvr~~~~~~~~~~~  459 (483)
                      ++-.+..++.|...|..+..........     +.....+..|++++++...+   .-+|+.-.-++.|+.+.+.+..
T Consensus       241 e~~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~~  318 (414)
T COG3903         241 ERALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRSG  318 (414)
T ss_pred             HHHHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999988874333322222     22344577889999987653   2246677777777777766543

>PF05729 NACHT: NACHT domain

Probab=99.26  E-value=6.7e-11  Score=103.21  Aligned_cols=142  Identities=25%  Similarity=0.358  Sum_probs=85.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc-----eeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD-----GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      |++.|+|.+|+||||+++.++..+.....     ...++...+........ ..+...+......    .........  
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~l~~~~~~----~~~~~~~~~--   73 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNS-RSLADLLFDQLPE----SIAPIEELL--   73 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhcccc-chHHHHHHHhhcc----chhhhHHHH--
Confidence            57899999999999999999988765542     23444444433332221 1232222222211    111111111  


Q ss_pred             HHHHHhcCceEEEEcCCCCHHH-------------HHHHhcCCCCCCCCcEEEEEcCCHhH---HhhCCCcceEecCCCC
Q 038919          242 IGRRLRQKKVLLVIDDVAHVEQ-------------LRRLAGKRDWFGPGSRIIITTRDEHL---LKLHRVEEVFKLEALT  305 (483)
Q Consensus       242 l~~~l~~~~~LlVlDdv~~~~~-------------~~~l~~~~~~~~~~~~iliTtR~~~~---~~~~~~~~~~~l~~L~  305 (483)
                      .......++++||||++|....             +..+...  ...++++++||+|....   .........+.+.+|+
T Consensus        74 ~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~--~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~  151 (166)
T PF05729_consen   74 QELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQ--ALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFS  151 (166)
T ss_pred             HHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhh--ccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCC
Confidence            1112257899999999964322             2223322  12578999999998655   2233344579999999


Q ss_pred             hHHHHHHHHHhh
Q 038919          306 YDEAFQLFCLKA  317 (483)
Q Consensus       306 ~~ea~~L~~~~~  317 (483)
                      .++..+++.+..
T Consensus       152 ~~~~~~~~~~~f  163 (166)
T PF05729_consen  152 EEDIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHHHh
Confidence            999999997765

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

Probab=99.25  E-value=1.4e-09  Score=102.93  Aligned_cols=178  Identities=19%  Similarity=0.184  Sum_probs=103.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+.+.|+|++|+|||||++.+++.+...-...+++.+     ..... ..+...+...+ +.... ..+.......+...
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~-----~~~~~-~~~l~~i~~~l-G~~~~-~~~~~~~~~~l~~~  114 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVN-----TRVDA-EDLLRMVAADF-GLETE-GRDKAALLRELEDF  114 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeC-----CCCCH-HHHHHHHHHHc-CCCCC-CCCHHHHHHHHHHH
Confidence            4689999999999999999999876532111122221     11122 45555555543 22211 12222222223222


Q ss_pred             -----HhcCceEEEEcCCCCH--HHHHHH---hcCCCCCCCCcEEEEEcCCHhHHhhC----------CCcceEecCCCC
Q 038919          246 -----LRQKKVLLVIDDVAHV--EQLRRL---AGKRDWFGPGSRIIITTRDEHLLKLH----------RVEEVFKLEALT  305 (483)
Q Consensus       246 -----l~~~~~LlVlDdv~~~--~~~~~l---~~~~~~~~~~~~iliTtR~~~~~~~~----------~~~~~~~l~~L~  305 (483)
                           ..+++.+||+||++..  ..++.+   ............|++|.... .....          .....+.+++|+
T Consensus       115 l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~  193 (269)
T TIGR03015       115 LIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLD  193 (269)
T ss_pred             HHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCC
Confidence                 2578899999999753  333333   22211112233455665432 21111          113457899999


Q ss_pred             hHHHHHHHHHhhccCC--CCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          306 YDEAFQLFCLKAFETQ--KPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       306 ~~ea~~L~~~~~~~~~--~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                      .+|..+++...+....  ....-..+..+.|++.++|+|..|..++..+
T Consensus       194 ~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       194 REETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999999987764322  1122345788999999999999999988775

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.

>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A

Probab=99.24  E-value=7.1e-12  Score=99.86  Aligned_cols=76  Identities=34%  Similarity=0.534  Sum_probs=64.3

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCc-eEeee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQ-IFPIF   79 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~-v~Pvf   79 (483)
                      .|+..|.+.|+++|+++|+|. +++.|+++...|.++|++|+..|+++|++|..|.||..|+..+.+    .+. ++||.
T Consensus        11 ~~a~~l~~~L~~~g~~v~~d~-~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~----~~~~iipv~   85 (102)
T PF13676_consen   11 EFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK----RGKPIIPVR   85 (102)
T ss_dssp             CCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC----TSESEEEEE
T ss_pred             HHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH----CCCEEEEEE
Confidence            367899999999999999997 999999999999999999999999999999999999999998733    455 99998


Q ss_pred             ec
Q 038919           80 YD   81 (483)
Q Consensus        80 ~~   81 (483)
                      .+
T Consensus        86 ~~   87 (102)
T PF13676_consen   86 LD   87 (102)
T ss_dssp             CS
T ss_pred             EC
Confidence            54

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

Probab=99.19  E-value=3e-09  Score=100.76  Aligned_cols=233  Identities=20%  Similarity=0.270  Sum_probs=133.9

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      .+++|-...+.   +++.  ++......+||+||+||||||+.++......|...--+.        .+. .++      
T Consensus        30 ~HLlg~~~~lr---r~v~--~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~--------~gv-kdl------   89 (436)
T COG2256          30 EHLLGEGKPLR---RAVE--AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT--------SGV-KDL------   89 (436)
T ss_pred             HhhhCCCchHH---HHHh--cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc--------ccH-HHH------
Confidence            45555544444   4444  345678899999999999999999997766653211110        111 111      


Q ss_pred             HHhcccCCCccchhhhHHHH-HHHHhcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEE--EcCCHhHH---hhCC
Q 038919          223 DLLKLADNSIRNVYDGINMI-GRRLRQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIII--TTRDEHLL---KLHR  294 (483)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~ili--TtR~~~~~---~~~~  294 (483)
                                   ...++.- +....+++++|++|.|.  +..|-+.|++.+.   .|..|+|  ||-|+...   ....
T Consensus        90 -------------r~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~ALlS  153 (436)
T COG2256          90 -------------REIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPALLS  153 (436)
T ss_pred             -------------HHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHHhh
Confidence                         1111112 22345889999999995  5677778887754   5666665  77776431   1223


Q ss_pred             CcceEecCCCChHHHHHHHHHhhccCCC-----CCchHHHHHHHHHHHhCCChHHHH---HHHHHhC-CC---CHHHHHH
Q 038919          295 VEEVFKLEALTYDEAFQLFCLKAFETQK-----PREEYVHLSQLVVNYAGGLPLALK---VLGSFLF-GR---PVDEWTS  362 (483)
Q Consensus       295 ~~~~~~l~~L~~~ea~~L~~~~~~~~~~-----~~~~~~~~~~~i~~~~~G~PLal~---~la~~l~-~~---~~~~~~~  362 (483)
                      ...++.+++|+.++-.+++.+.+.....     .....++..+.++..++|---..-   .++..+. ..   ..+..++
T Consensus       154 R~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~  233 (436)
T COG2256         154 RARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEE  233 (436)
T ss_pred             hhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHH
Confidence            5578999999999999999884322111     111234567778899988764332   2222222 22   2344444


Q ss_pred             HHHHhcc------CCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCCCCCHHHHHHH
Q 038919          363 TLERLKR------EPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKI  412 (483)
Q Consensus       363 ~l~~l~~------~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~~~~~~l~~~  412 (483)
                      .+.+-..      ....++...|..|+.+=++.+.. ..++=++-.|.++.++.+.
T Consensus       234 ~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAAL-yylARmi~~GeDp~yiARR  288 (436)
T COG2256         234 ILQRRSARFDKDGDAHYDLISALHKSVRGSDPDAAL-YYLARMIEAGEDPLYIARR  288 (436)
T ss_pred             HHhhhhhccCCCcchHHHHHHHHHHhhccCCcCHHH-HHHHHHHhcCCCHHHHHHH
Confidence            4443211      11245677778888877665532 2222233344545555443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.07  E-value=1.3e-08  Score=99.86  Aligned_cols=202  Identities=16%  Similarity=0.155  Sum_probs=111.0

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc-ceeEEEEecccccccCCcHHHHH
Q 038919          139 SEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF-DGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      |.....++|++..++.+.+++..+  ..+.+.++|++|+||||+|+.+++.+.... ...+...++........  ..+.
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~--~~~~   86 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGK--KYLV   86 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcch--hhhh
Confidence            333468999999999999988743  345688999999999999999998775332 22222222222111000  0000


Q ss_pred             H--HHHHHHhccc-CCCccchhhhHHHHHHHHh-----cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          218 K--QLISDLLKLA-DNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       218 ~--~ll~~~~~~~-~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .  .... ..+.. .............+.....     ..+-+||+||++..  .....+...+......+++|+|+.++
T Consensus        87 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         87 EDPRFAH-FLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             cCcchhh-hhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0  0000 00000 0000011111111111111     33458999999643  22333333332234567788777543


Q ss_pred             h-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          288 H-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       288 ~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      . +... ......+++.+++.++...++...+......  -..+.++.+++.++|++-.+..
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            2 2221 1234578899999999999998876443322  2346788899999998766544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.06  E-value=2e-08  Score=100.67  Aligned_cols=177  Identities=25%  Similarity=0.345  Sum_probs=107.3

Q ss_pred             HHhhhchhHHHHH---HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          142 LKELVGIESRLEK---LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       142 i~~~vGR~~~l~~---l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ...+||.+..+..   +.+++...  ..+.+.|+|++|+||||||+.+++.....|..   +. .  ..  .+  ..-..
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~---l~-a--~~--~~--~~~ir   78 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGATDAPFEA---LS-A--VT--SG--VKDLR   78 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---Ee-c--cc--cc--HHHHH
Confidence            4678999888766   77777643  45678899999999999999999876544311   11 1  00  01  11111


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHH-HHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEE--EcCCHhHH---
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGR-RLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIII--TTRDEHLL---  290 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~ili--TtR~~~~~---  290 (483)
                      .++..                  ... ...+++.+|+||+++..  .+.+.++..+.   .+..++|  ||.++...   
T Consensus        79 ~ii~~------------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~  137 (413)
T PRK13342         79 EVIEE------------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNP  137 (413)
T ss_pred             HHHHH------------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccH
Confidence            11111                  111 11357789999999743  45555655543   2444444  34443211   


Q ss_pred             hhCCCcceEecCCCChHHHHHHHHHhhccCCCCC-chHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          291 KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPR-EEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      ........+.+.+++.++...++.+.+....... ....+..+.+++.++|.|..+..+...
T Consensus       138 aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        138 ALLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             HHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            1122336789999999999999988653311111 233467788999999999877554433

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.04  E-value=2.8e-08  Score=103.31  Aligned_cols=281  Identities=15%  Similarity=0.122  Sum_probs=149.7

Q ss_pred             HhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-----cc-eeEEEEecccccccCCcH
Q 038919          143 KELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-----FD-GSSFLADVKEKYDKEGSV  213 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~-~~~~~~~~~~~~~~~~~~  213 (483)
                      +.++||+.|+++|...|..   ++....++.|+|++|+|||++++.+.+++...     .+ ..+...++......    
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp----  830 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHP----  830 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCH----
Confidence            5789999999999988764   22334577899999999999999999876432     12 22333433322222    


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh---cCceEEEEcCCCCH-----HHHHHHhcCCCCCCCCcEEEE--E
Q 038919          214 ISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR---QKKVLLVIDDVAHV-----EQLRRLAGKRDWFGPGSRIII--T  283 (483)
Q Consensus       214 ~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~ili--T  283 (483)
                      ..+...+..++.+...............+...+.   +...+||||+++..     +.+-.|+....  ..+++|++  +
T Consensus       831 ~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKLiLIGI  908 (1164)
T PTZ00112        831 NAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKLVLIAI  908 (1164)
T ss_pred             HHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeEEEEEe
Confidence            4455555555544333222233334444444432   23469999999743     22333333221  23444433  3


Q ss_pred             cCCHh--------HHhhCCCcceEecCCCChHHHHHHHHHhhccCC-CCCchHHHH-HHHHHHHhCCChHHHHHHHHHhC
Q 038919          284 TRDEH--------LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQ-KPREEYVHL-SQLVVNYAGGLPLALKVLGSFLF  353 (483)
Q Consensus       284 tR~~~--------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~-~~~i~~~~~G~PLal~~la~~l~  353 (483)
                      |.+-.        +...+. ...+..+|++.++-.+++..++.... ...+...++ ++.++...|..=.||.++-....
T Consensus       909 SNdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        909 SNTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             cCchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence            33211        111111 22467799999999999998875321 122222222 23333334445566665544432


Q ss_pred             C--C---CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCC-----CCCHHHHHH----HHHhC---
Q 038919          354 G--R---PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFK-----GEKRDYVSK----ILDSC---  416 (483)
Q Consensus       354 ~--~---~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~-----~~~~~~l~~----~~~~~---  416 (483)
                      .  .   .......+..++.       ...+...+..||.+.|.+|..+.....     .++...+..    ++...   
T Consensus       988 ikegskVT~eHVrkAleeiE-------~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~ 1060 (1164)
T PTZ00112        988 NKRGQKIVPRDITEATNQLF-------DSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKY 1060 (1164)
T ss_pred             hcCCCccCHHHHHHHHHHHH-------hhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhh
Confidence            1  1   1222333333221       122445567899998888875554322     233333322    22211   


Q ss_pred             -CCC-----hhhhHHHHhhCCceeEec
Q 038919          417 -GFE-----PVIGIGVLIEKSLLTICE  437 (483)
Q Consensus       417 -~~~-----~~~~l~~L~~~sLi~~~~  437 (483)
                       +.+     ....|.+|...|+|-..+
T Consensus      1061 iGv~plTqRV~d~L~eL~~LGIIl~ep 1087 (1164)
T PTZ00112       1061 IGMCSNNELFKIMLDKLVKMGILLIRP 1087 (1164)
T ss_pred             cCCCCcHHHHHHHHHHHHhcCeEEecC
Confidence             122     334578899999998763

>PRK06893 DNA replication initiation factor; Validated

Probab=98.96  E-value=2.3e-08  Score=91.86  Aligned_cols=151  Identities=16%  Similarity=0.214  Sum_probs=92.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+.+.|+|++|+|||+|+..+++.+........|+. ....       ......                      +.+.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~-~~~~-------~~~~~~----------------------~~~~   88 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP-LSKS-------QYFSPA----------------------VLEN   88 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee-HHHh-------hhhhHH----------------------HHhh
Confidence            467899999999999999999998766555555554 1100       000000                      1111


Q ss_pred             HhcCceEEEEcCCCCH---HHHH----HHhcCCCCCCCCcEEE-EEcCC---------HhHHhhCCCcceEecCCCChHH
Q 038919          246 LRQKKVLLVIDDVAHV---EQLR----RLAGKRDWFGPGSRII-ITTRD---------EHLLKLHRVEEVFKLEALTYDE  308 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~---~~~~----~l~~~~~~~~~~~~il-iTtR~---------~~~~~~~~~~~~~~l~~L~~~e  308 (483)
                      +. +.-+|+|||++..   ..++    .++....  ..+..+| +|+..         +.+...+.....+++++++.++
T Consensus        89 ~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~--~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~  165 (229)
T PRK06893         89 LE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIK--EQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQ  165 (229)
T ss_pred             cc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHH--HcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHH
Confidence            11 2348999999753   2222    2222211  2355554 45543         2333444455688999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      .++++.+.+.....  ...++...-|++.+.|..-.+..+-..
T Consensus       166 ~~~iL~~~a~~~~l--~l~~~v~~~L~~~~~~d~r~l~~~l~~  206 (229)
T PRK06893        166 KIIVLQRNAYQRGI--ELSDEVANFLLKRLDRDMHTLFDALDL  206 (229)
T ss_pred             HHHHHHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            99999988864432  233467778888888887776655443

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

Probab=98.93  E-value=1.9e-07  Score=91.15  Aligned_cols=280  Identities=15%  Similarity=0.141  Sum_probs=166.8

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhccccee-EEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGS-SFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..+.+|+.+++++...|..  ....+.-+.|+|.+|+|||+.++.+++++....+.. +...|+......    .++...
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~----~~i~~~   92 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTP----YQVLSK   92 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCH----HHHHHH
Confidence            4599999999999987764  222234499999999999999999999988775554 455545443332    667777


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCH-----HHHHHHhcCCCCCCCCcE--EEEEcCCHhHH
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV-----EQLRRLAGKRDWFGPGSR--IIITTRDEHLL  290 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~--iliTtR~~~~~  290 (483)
                      ++..+. ..........+....+.+.+.  ++.+++|||+++..     +.+-.|.......  .++  +|..+-+....
T Consensus        93 i~~~~~-~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~  169 (366)
T COG1474          93 ILNKLG-KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKFL  169 (366)
T ss_pred             HHHHcC-CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHHH
Confidence            777654 222233445555666666665  47899999999643     3444554443322  333  33344433221


Q ss_pred             h--------hCCCcceEecCCCChHHHHHHHHHhhc---cCCCCCchHHHHHHHHHHHhCCC-hHHHHHHHHH--hCC--
Q 038919          291 K--------LHRVEEVFKLEALTYDEAFQLFCLKAF---ETQKPREEYVHLSQLVVNYAGGL-PLALKVLGSF--LFG--  354 (483)
Q Consensus       291 ~--------~~~~~~~~~l~~L~~~ea~~L~~~~~~---~~~~~~~~~~~~~~~i~~~~~G~-PLal~~la~~--l~~--  354 (483)
                      .        ..+. ..+..+|-+.+|-.+.+..++-   ......+...+++..++...+|- =.||..+-..  +.+  
T Consensus       170 ~~ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~  248 (366)
T COG1474         170 DYLDPRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAERE  248 (366)
T ss_pred             HHhhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhh
Confidence            1        1222 2377899999999999988763   33344445555666666666653 3444443222  211  


Q ss_pred             C----CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCCCCCHHHHHHH----HHhCCC---Chhhh
Q 038919          355 R----PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKGEKRDYVSKI----LDSCGF---EPVIG  423 (483)
Q Consensus       355 ~----~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~~~~~~l~~~----~~~~~~---~~~~~  423 (483)
                      .    +.+.-..+....       -...+...+..|+.++|..+..++....++....+...    ....+.   .....
T Consensus       249 ~~~~v~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~~~i  321 (366)
T COG1474         249 GSRKVSEDHVREAQEEI-------ERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRFSDI  321 (366)
T ss_pred             CCCCcCHHHHHHHHHHh-------hHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHHHHH
Confidence            0    111111111111       12244556889999999888777776455554444433    323333   33456


Q ss_pred             HHHHhhCCceeEec
Q 038919          424 IGVLIEKSLLTICE  437 (483)
Q Consensus       424 l~~L~~~sLi~~~~  437 (483)
                      +.+|...|+|....
T Consensus       322 i~~L~~lgiv~~~~  335 (366)
T COG1474         322 ISELEGLGIVSASL  335 (366)
T ss_pred             HHHHHhcCeEEeee
Confidence            88999999998653

>PLN03025 replication factor C subunit; Provisional

Probab=98.92  E-value=1.1e-07  Score=92.01  Aligned_cols=186  Identities=13%  Similarity=0.192  Sum_probs=108.0

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh-cccceeEEEEecccccccCCcHHHH
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS-HEFDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      .|.-...++|.+..++.|..++..+  ..+.+.++|++|+||||+|..+++.+. ..|...+.-.+.   ++..+  ...
T Consensus         8 rP~~l~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~---sd~~~--~~~   80 (319)
T PLN03025          8 RPTKLDDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNA---SDDRG--IDV   80 (319)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecc---ccccc--HHH
Confidence            3444578999999999998887743  345578999999999999999998763 223222221111   11111  112


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-  292 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-  292 (483)
                      .+..+........ ..             ..++.-++|||+++..  ..-..+...+...+..+++++++... .+... 
T Consensus        81 vr~~i~~~~~~~~-~~-------------~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L  146 (319)
T PLN03025         81 VRNKIKMFAQKKV-TL-------------PPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPI  146 (319)
T ss_pred             HHHHHHHHHhccc-cC-------------CCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhH
Confidence            2222221111000 00             0134569999999753  33333433333334567777766532 22111 


Q ss_pred             CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          293 HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      ......+++.+++.++....+...+......  ...+....+++.++|..-.+.
T Consensus       147 ~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~--i~~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        147 QSRCAIVRFSRLSDQEILGRLMKVVEAEKVP--YVPEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             HHhhhcccCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            1123578999999999999998877443322  224567889999999875443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.92  E-value=2.8e-07  Score=90.11  Aligned_cols=196  Identities=13%  Similarity=0.083  Sum_probs=110.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEecccccccCCcHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      +.++|-+...+.|.+.+..+. -...+.++|+.|+||+++|..+++.+--.-  .....-... ......+. ......+
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~-~~l~~~~~-c~~c~~i   95 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPP-TSLAIDPD-HPVARRI   95 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCcccccc-ccccCCCC-ChHHHHH
Confidence            679999999999999888542 245789999999999999999998763211  110000000 00000000 0111111


Q ss_pred             HHHHhc----cc---CCC------ccchhhhHHHHHHHHh-----cCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEE
Q 038919          221 ISDLLK----LA---DNS------IRNVYDGINMIGRRLR-----QKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRI  280 (483)
Q Consensus       221 l~~~~~----~~---~~~------~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~i  280 (483)
                      ......    ..   ...      .-.+++ +..+.+.+.     +.+-++|+|+++  +......|+..+..-.+++.+
T Consensus        96 ~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~  174 (365)
T PRK07471         96 AAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLF  174 (365)
T ss_pred             HccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEE
Confidence            100000    00   000      001112 222223322     567799999996  445555665555443456667


Q ss_pred             EEEcCCHh-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          281 IITTRDEH-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       281 liTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      |++|.+.. +... ......+.+.+++.++..+++......   ..   .+....++..++|+|+....+
T Consensus       175 IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~---~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        175 LLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP---DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            77776653 3222 234567999999999999999876421   11   122367899999999866554

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.92  E-value=9.4e-08  Score=87.98  Aligned_cols=169  Identities=19%  Similarity=0.192  Sum_probs=99.8

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcc
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKL  227 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~  227 (483)
                      .+..++.+.+++..  ...+.+.|+|++|+|||+||+.+++.........+++. +....          ... ..    
T Consensus        22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~----------~~~-~~----   83 (226)
T TIGR03420        22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELA----------QAD-PE----   83 (226)
T ss_pred             cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHH----------HhH-HH----
Confidence            44567777777543  23578999999999999999999987654433333332 22111          000 00    


Q ss_pred             cCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH----HHHHHhcCCCC-CCCCcEEEEEcCCHh---------HHhhC
Q 038919          228 ADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE----QLRRLAGKRDW-FGPGSRIIITTRDEH---------LLKLH  293 (483)
Q Consensus       228 ~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----~~~~l~~~~~~-~~~~~~iliTtR~~~---------~~~~~  293 (483)
                                    +...+.+ .-+|||||++...    ..+.+...+.. ...+..+|+||+...         +....
T Consensus        84 --------------~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~  148 (226)
T TIGR03420        84 --------------VLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRL  148 (226)
T ss_pred             --------------HHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHH
Confidence                          0011122 2489999996432    12222221111 023457888887432         11122


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      .....+++++++.++...++...+.....  ....+..+.+.+.+.|+|..+..+...
T Consensus       149 ~~~~~i~l~~l~~~e~~~~l~~~~~~~~~--~~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       149 AWGLVFQLPPLSDEEKIAALQSRAARRGL--QLPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             hcCeeEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            22357899999999999999876532221  223466788888999999888766544

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.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.91  E-value=1.9e-07  Score=90.78  Aligned_cols=184  Identities=16%  Similarity=0.200  Sum_probs=107.9

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHH
Q 038919          139 SEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      |.....++|++..++.+..++..+  ..+.+.|+|++|+||||+++.+++.+... +...+...+..   +..+  ....
T Consensus        13 P~~~~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~---~~~~--~~~~   85 (319)
T PRK00440         13 PRTLDEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNAS---DERG--IDVI   85 (319)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccc---cccc--hHHH
Confidence            334467999999999999998753  33457999999999999999999876432 21111111111   1111  1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HHh-hC
Q 038919          218 KQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LLK-LH  293 (483)
Q Consensus       218 ~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~  293 (483)
                      ...+..+......               ....+-++++|+++..  +....+...+....+.+.+|+++.... +.. ..
T Consensus        86 ~~~i~~~~~~~~~---------------~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~  150 (319)
T PRK00440         86 RNKIKEFARTAPV---------------GGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQ  150 (319)
T ss_pred             HHHHHHHHhcCCC---------------CCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHH
Confidence            1111111110000               0123458999999643  333444443333345667777664321 111 11


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      .....+++.+++.++...++...+......  -..+.+..+++.++|.+.-+.
T Consensus       151 sr~~~~~~~~l~~~ei~~~l~~~~~~~~~~--i~~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        151 SRCAVFRFSPLKKEAVAERLRYIAENEGIE--ITDDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             HHhheeeeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            223468999999999999998877543321  234678889999999987643

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.90  E-value=2.3e-07  Score=96.04  Aligned_cols=196  Identities=18%  Similarity=0.169  Sum_probs=114.1

Q ss_pred             HHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          140 EILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       140 ~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ....++||.+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+...-..         .....+. ......
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~---------~~~PCG~-C~sCr~   81 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGV---------TSQPCGV-CRACRE   81 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCC---------CCCCCcc-cHHHHH
Confidence            334789999999999999988542 24567899999999999999999876421100         0000000 001111


Q ss_pred             HHH----HHhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHhH
Q 038919          220 LIS----DLLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEHL  289 (483)
Q Consensus       220 ll~----~~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~  289 (483)
                      +..    .+...........++..+.+...    ..++.-++|||+++..  ..+..|+..+.....+.++|++|.+..-
T Consensus        82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~K  161 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQK  161 (830)
T ss_pred             HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhh
Confidence            100    00000000011112211222111    1234558999999754  4466666655544567888887776543


Q ss_pred             Hh-h-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh-HHHHHH
Q 038919          290 LK-L-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP-LALKVL  348 (483)
Q Consensus       290 ~~-~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~l  348 (483)
                      .. . ......+++.+++.++..+.+.+.+......  ...+..+.|++.++|.. -+|..+
T Consensus       162 Ip~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~--id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        162 IPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA--FEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             ccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            21 1 2334679999999999999998876443321  23466788999998865 455543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.90  E-value=1.1e-07  Score=96.79  Aligned_cols=191  Identities=18%  Similarity=0.147  Sum_probs=111.6

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc--ccceeEEEEecccccccCCcHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH--EFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ...++|-+...+.|..++..+. -...+.++|++|+||||+|+.+++.+..  .+...|+.+....         .+...
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~---------~i~~~   82 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCL---------AVRRG   82 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhH---------HHhcC
Confidence            3689999999999998887542 2456799999999999999999987642  1222222221000         00000


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHHh
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLLK  291 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~  291 (483)
                      .-..+...........+. +..+.+.+     .+++-++|||+++..  ..+..++..+....+.+.+|+++... .+..
T Consensus        83 ~h~dv~el~~~~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~  161 (504)
T PRK14963         83 AHPDVLEIDAASNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPP  161 (504)
T ss_pred             CCCceEEecccccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCCh
Confidence            000000000000111111 11122222     245668999999743  55666666655434555666555433 3322


Q ss_pred             h-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          292 L-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       292 ~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      . ......+++.+++.++..+++...+......  ...+.+..|++.++|.+--+
T Consensus       162 ~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~--i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        162 TILSRTQHFRFRRLTEEEIAGKLRRLLEAEGRE--AEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             HHhcceEEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            2 2334679999999999999998877443322  23467888999999998654

>PRK04195 replication factor C large subunit; Provisional

Probab=98.89  E-value=1.7e-07  Score=95.95  Aligned_cols=186  Identities=13%  Similarity=0.154  Sum_probs=111.0

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcC--CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHH
Q 038919          139 SEILKELVGIESRLEKLKFLMGAG--CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      |.-+..++|.+..++.+.+|+..-  ....+.+.|+|++|+||||+|..+++.+.  +.  +...+.+.    ... ...
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~--~ielnasd----~r~-~~~   80 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WE--VIELNASD----QRT-ADV   80 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CC--EEEEcccc----ccc-HHH
Confidence            334578999999999999988642  12267899999999999999999999763  22  22222211    111 222


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH------HHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV------EQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~------~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      ...++........               ....++-+||||+++..      ..+..+...+.  ..+..||+|+.+..-.
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            2222222111100               01135679999999753      22444433332  2344566666433211


Q ss_pred             ---hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          291 ---KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       291 ---~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                         ........+.+.+++.++....+...+......  ...+....|++.++|..-.+......+
T Consensus       144 ~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~--i~~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        144 SLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE--CDDEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             chhhHhccceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence               111234578999999999999988776443322  234678889999999876664433333

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

Probab=98.86  E-value=1.8e-08  Score=89.54  Aligned_cols=50  Identities=32%  Similarity=0.497  Sum_probs=35.8

Q ss_pred             hhhchhHHHHHHHHHhhc-CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          144 ELVGIESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .||||+.+++++...|.. .....+.+.|+|++|+|||+|..+++.++...
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 33447899999999999999999999988776

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=6.5e-07  Score=88.23  Aligned_cols=191  Identities=16%  Similarity=0.164  Sum_probs=110.2

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|-+..++.+.+.+..+. -...+.++|++|+||||+|+.+++.+.-.....         ..+.+. .....++.
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~---------~~pc~~-c~~c~~~~   83 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT---------SNPCRK-CIICKEIE   83 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC---------CCCCCC-CHHHHHHh
Confidence            3679999999999999887532 246789999999999999999998764211000         000000 00000110


Q ss_pred             HH----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-H
Q 038919          222 SD----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-L  289 (483)
Q Consensus       222 ~~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~  289 (483)
                      ..    +...........++ +..+.+.+     .+++-++|+|+++..  .....++..+....+..++|++|.+.. +
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l  162 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKI  162 (363)
T ss_pred             cCCCCceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhh
Confidence            00    00000000011111 11122221     234569999999754  345666666554456667777665443 3


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      ... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.|.-+.
T Consensus       163 ~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~--i~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        163 PKTILSRCLQFKLKIISEEKIFNFLKYILIKESID--TDEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             hHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            222 2234679999999999999988766443211  233567889999999886443

>PF14516 AAA_35: AAA-like domain

Probab=98.83  E-value=4.3e-06  Score=81.20  Aligned_cols=282  Identities=13%  Similarity=0.083  Sum_probs=147.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc-cCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD-KEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~l~~~ll  221 (483)
                      +..|+|...-+++.+.+..   ....+.|.|+-.+|||+|...+.+.....-. .+...++..... ...........+.
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~---~G~~~~I~apRq~GKTSll~~l~~~l~~~~~-~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQ---PGSYIRIKAPRQMGKTSLLLRLLERLQQQGY-RCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CcccCchHHHHHHHHHHhc---CCCEEEEECcccCCHHHHHHHHHHHHHHCCC-EEEEEEeecCCCcccCCHHHHHHHHH
Confidence            4678998555566665553   1368999999999999999999988865422 233334544322 1222244444444


Q ss_pred             HHHhcccCCC----------ccchhhhHHHHHHHH-h--cCceEEEEcCCCCHH----HHHHHhcCC-------CCCC--
Q 038919          222 SDLLKLADNS----------IRNVYDGINMIGRRL-R--QKKVLLVIDDVAHVE----QLRRLAGKR-------DWFG--  275 (483)
Q Consensus       222 ~~~~~~~~~~----------~~~~~~~~~~l~~~l-~--~~~~LlVlDdv~~~~----~~~~l~~~~-------~~~~--  275 (483)
                      ..+...-...          ..........+.+.+ .  +++++|+||+++..-    ....|+..+       ....  
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence            4433221111          111222233343332 2  689999999997431    112222211       1000  


Q ss_pred             CCcEEEEEcCCHh-HHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          276 PGSRIIITTRDEH-LLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       276 ~~~~iliTtR~~~-~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ...++++....+. ...     .......+.|++++.+|...|+..+-..  .    .....++|...+||+|..+..++
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~--~----~~~~~~~l~~~tgGhP~Lv~~~~  240 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE--F----SQEQLEQLMDWTGGHPYLVQKAC  240 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc--C----CHHHHHHHHHHHCCCHHHHHHHH
Confidence            1122222222111 111     0123356899999999999999876422  1    12338999999999999999999


Q ss_pred             HHhCCCCHHHHHHHHHHhccCCCccHHHHHHHhhcCC--cHHHHHHHhhhhcCCCCCCHHHHHHHHHhCCCChhhhHHHH
Q 038919          350 SFLFGRPVDEWTSTLERLKREPENEILDILQISFDGL--KEAEKEIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVL  427 (483)
Q Consensus       350 ~~l~~~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L--~~~~k~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L  427 (483)
                      ..+..... ..+..+..-.... .....-|+.-.+.|  .++.+.++..+-.-...+             .........|
T Consensus       241 ~~l~~~~~-~~~~l~~~a~~~~-~~~~~hL~~l~~~L~~~~~L~~~~~~il~~~~~~-------------~~~~~~~~~L  305 (331)
T PF14516_consen  241 YLLVEEQI-TLEQLLEEAITDN-GIYNDHLDRLLDRLQQNPELLEAYQQILFSGEPV-------------DLDSDDIYKL  305 (331)
T ss_pred             HHHHHccC-cHHHHHHHHHHhc-ccHHHHHHHHHHHHccCHHHHHHHHHHHhCCCCc-------------ccChHHHHHH
Confidence            99865321 1222222211110 11122233333333  223333333222211111             1122346689


Q ss_pred             hhCCceeEecCCeEEc-cHHHHHH
Q 038919          428 IEKSLLTICESDRLWM-HDLLLEM  450 (483)
Q Consensus       428 ~~~sLi~~~~~~~~~m-H~lvr~~  450 (483)
                      ...|||... +|.+.. .++-|++
T Consensus       306 ~~~GLV~~~-~~~~~~~n~iY~~y  328 (331)
T PF14516_consen  306 ESLGLVKRD-GNQLEVRNPIYRQY  328 (331)
T ss_pred             HHCCeEEEe-CCEEEEEcHHHHHH
Confidence            999999998 566554 4554443

>PTZ00202 tuzin; Provisional

Probab=98.82  E-value=1.9e-06  Score=83.69  Aligned_cols=158  Identities=16%  Similarity=0.197  Sum_probs=97.3

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCC-CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCN-DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ++.|+||+.++..|...|...+. .++++.|+|++|+|||||++.+.....    ...++.|..      +. .+++..+
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr------g~-eElLr~L  329 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR------GT-EDTLRSV  329 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC------CH-HHHHHHH
Confidence            37899999999999999975333 356999999999999999999997654    235555444      22 6777777


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHH-----h-cCceEEEEcCC--CCHHH----HHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRL-----R-QKKVLLVIDDV--AHVEQ----LRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l-----~-~~~~LlVlDdv--~~~~~----~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                      +..+.-.   ......++...+.+.+     . +++.+||+-=-  .+..-    .-.|...    ..-|+|++----+.
T Consensus       330 L~ALGV~---p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v~la~d----rr~ch~v~evples  402 (550)
T PTZ00202        330 VKALGVP---NVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVVALACD----RRLCHVVIEVPLES  402 (550)
T ss_pred             HHHcCCC---CcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHHHHHcc----chhheeeeeehHhh
Confidence            7775432   1222233333333332     2 56666666422  22211    1122211    34577776444332


Q ss_pred             HHh---hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          289 LLK---LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       289 ~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      +..   ..+.-..|.+++++.++|.++.....
T Consensus       403 lt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        403 LTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             cchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            211   11233468999999999999886654

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=4.3e-07  Score=90.46  Aligned_cols=195  Identities=14%  Similarity=0.108  Sum_probs=111.6

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      -...+||-+..+..|..++..+. -...+.++|++|+||||+|+.+++.+....+...-.++.      ......+....
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~------C~sC~~i~~g~   88 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNE------CTSCLEITKGI   88 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCC------CcHHHHHHccC
Confidence            34789999999999999888542 235689999999999999999998764321110000000      00001110000


Q ss_pred             HHHHhccc---CCCccchhhhHHHHHHH-HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCC-HhHHhh-
Q 038919          221 ISDLLKLA---DNSIRNVYDGINMIGRR-LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRD-EHLLKL-  292 (483)
Q Consensus       221 l~~~~~~~---~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~-~~~~~~-  292 (483)
                      ...+....   .....+..+..+.+... ..++.-++|+|+++.  .+....|+..+........+|++|.+ ..+... 
T Consensus        89 ~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI  168 (484)
T PRK14956         89 SSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETI  168 (484)
T ss_pred             CccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHH
Confidence            00000000   00111112222222111 235667999999974  45677777666543455655555554 333222 


Q ss_pred             CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          293 HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      ......|.+.+++.++..+.+...+.....  .-..+....|++.++|.+.-
T Consensus       169 ~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi--~~e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        169 LSRCQDFIFKKVPLSVLQDYSEKLCKIENV--QYDQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             HhhhheeeecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCChHHH
Confidence            223457999999999999998887644322  12346788899999999843

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=3.9e-07  Score=93.37  Aligned_cols=193  Identities=19%  Similarity=0.136  Sum_probs=112.8

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      -...+||.+...+.|.+++..+. -...+.++|++|+||||+|+.+++.+.-.....         ....+. ....+.+
T Consensus        13 tFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~---------~~pCg~-C~sC~~I   81 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETGVT---------STPCEV-CATCKAV   81 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCC---------CCCCcc-CHHHHHH
Confidence            34789999999999999998542 246889999999999999999998763211000         000000 0000010


Q ss_pred             HH----HHhcccCCCccchhhhHHHHHH----HHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          221 IS----DLLKLADNSIRNVYDGINMIGR----RLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       221 l~----~~~~~~~~~~~~~~~~~~~l~~----~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      ..    .+...........++..+.+..    -..++.-++|+|+++..  .....|+..+.....++.+|++|.+..-.
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            00    0000000001112221111111    11255679999999754  45666665555445667777777654321


Q ss_pred             --hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          291 --KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       291 --~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                        ........+++.+++.++..+.+...+.....  ....+....|++.++|.+..+.
T Consensus       162 p~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI--~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        162 PITVISRCLQFTLRPLAVDEITKHLGAILEKEQI--AADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             hHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence              11234467999999999999999877644332  2334667889999999885443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=6e-07  Score=91.83  Aligned_cols=198  Identities=16%  Similarity=0.119  Sum_probs=113.2

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ...++||-+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+...-+...  ...  .....+. ......+
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            34789999999999999998542 2467789999999999999999987642110000  000  0000000 0000111


Q ss_pred             HH----HHhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hH
Q 038919          221 IS----DLLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HL  289 (483)
Q Consensus       221 l~----~~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~  289 (483)
                      ..    .+...........++..+.+...    ..++.-++|||+++.  ....+.|+..+..-..++.+|++|.+. .+
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            00    00000000111122222222211    135566999999974  456777777766545666766655544 33


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      ... ......+.+.+++.++..+.+.+.+......  ...+..+.|++.++|.|.-..
T Consensus       168 lpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~--~d~eAL~~IA~~A~Gs~RdAL  223 (700)
T PRK12323        168 PVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA--HEVNALRLLAQAAQGSMRDAL  223 (700)
T ss_pred             hhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            322 2234578999999999999988776433221  223556788999999986443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.77  E-value=2.1e-07  Score=91.90  Aligned_cols=172  Identities=14%  Similarity=0.251  Sum_probs=100.8

Q ss_pred             HhhhchhHHHHHHHHHhhcC-----------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGAG-----------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|++.+++++.+.+...           -..++-+.|+|++|+|||+||+.+++.....|-.      +.       
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~------v~-------  188 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIR------VV-------  188 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEe------cc-------
Confidence            57999999999998866421           1224569999999999999999999977654311      10       


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                      . ..+...    ..+.       ...... .+...-...+.+|+||+++..                ..+..++..+..+
T Consensus       189 ~-~~l~~~----~~g~-------~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~  256 (364)
T TIGR01242       189 G-SELVRK----YIGE-------GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGF  256 (364)
T ss_pred             h-HHHHHH----hhhH-------HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCC
Confidence            0 111111    1110       011111 122222356789999998643                1233333222211


Q ss_pred             --CCCcEEEEEcCCHhHH-----hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 --GPGSRIIITTRDEHLL-----KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 --~~~~~iliTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                        ..+..||.||......     ........+.++..+.++..++|..+..+.....+.   ....+++.+.|..
T Consensus       257 ~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~---~~~~la~~t~g~s  328 (364)
T TIGR01242       257 DPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDV---DLEAIAKMTEGAS  328 (364)
T ss_pred             CCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccC---CHHHHHHHcCCCC
Confidence              2466788888754322     112335678999999999999999887554332211   1456677777654

Many proteins may score above the trusted cutoff because an internal

>PF13173 AAA_14: AAA domain

Probab=98.76  E-value=2.2e-08  Score=83.17  Aligned_cols=119  Identities=18%  Similarity=0.204  Sum_probs=73.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      +++.|+|+.|+|||||++++++... .....+++. ....        .... ..            ..+ ..+.+.+..
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~--------~~~~-~~------------~~~-~~~~~~~~~   58 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDP--------RDRR-LA------------DPD-LLEYFLELI   58 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCH--------HHHH-Hh------------hhh-hHHHHHHhh
Confidence            6899999999999999999998766 112233332 2211        0000 00            000 122233333


Q ss_pred             hcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh------CCCcceEecCCCChHHH
Q 038919          247 RQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKL------HRVEEVFKLEALTYDEA  309 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~------~~~~~~~~l~~L~~~ea  309 (483)
                      ..++.+|+||++.....|...+..+....+..+|++|+.+......      .+....+++.||+..|-
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            3477899999998776666655554443567899999997765532      12234689999998873

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.76  E-value=1.9e-07  Score=85.99  Aligned_cols=172  Identities=17%  Similarity=0.160  Sum_probs=96.7

Q ss_pred             Hhhh-chhHHH-HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          143 KELV-GIESRL-EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~v-GR~~~l-~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ++|+ |...+. ..+.++... ....+.+.|+|++|+|||+||..+++.....-....++. ...          ....+
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~-~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~-~~~----------~~~~~   85 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAG-PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD-AAS----------PLLAF   85 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhc-cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe-hHH----------hHHHH
Confidence            3444 554433 444444442 233467899999999999999999987644322333333 111          00000


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCC-CCCc-EEEEEcCCHhHHh-----
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWF-GPGS-RIIITTRDEHLLK-----  291 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~-~~~~-~iliTtR~~~~~~-----  291 (483)
                                             .. ....-+||+||++..  .....+...+... ..+. .+|+|++......     
T Consensus        86 -----------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~  141 (227)
T PRK08903         86 -----------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLRED  141 (227)
T ss_pred             -----------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHH
Confidence                                   01 123347899999643  2222222222110 1233 4666666432111     


Q ss_pred             ---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          292 ---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       292 ---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                         .......+++++++.++-..++...+....  ..-.++..+.+++.+.|++..+..+...+
T Consensus       142 L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~--v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        142 LRTRLGWGLVYELKPLSDADKIAALKAAAAERG--LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence               222235789999999987777776543222  12334678888899999999887776554

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=1.1e-06  Score=92.93  Aligned_cols=190  Identities=17%  Similarity=0.116  Sum_probs=113.2

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc-e--eEEEEecccccccCCcHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD-G--SSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~--~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ...+||-+..++.|.+++..+. -...+.++|++|+||||+|+.+++.+..... .  .|..++             ...
T Consensus        15 FddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~-------------sC~   80 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCS-------------SCV   80 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCch-------------HHH
Confidence            3689999999999999887532 2456789999999999999999987643210 0  011100             000


Q ss_pred             HHHHH----HhcccC---CCccchhhhHHHHHH-HHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-
Q 038919          219 QLISD----LLKLAD---NSIRNVYDGINMIGR-RLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-  287 (483)
Q Consensus       219 ~ll~~----~~~~~~---~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-  287 (483)
                      .+...    +.....   ............+.. -..++.-++|||+++.  .+....|+..+......+++|++|.+. 
T Consensus        81 ~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~  160 (944)
T PRK14949         81 EIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQ  160 (944)
T ss_pred             HHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCch
Confidence            00000    000000   011111111211111 1235677999999974  466777776665545667776665543 


Q ss_pred             hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          288 HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       288 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      .+... ......|++.+|+.++....+...+.....  ....+.+..|++.++|.|--+..
T Consensus       161 kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI--~~edeAL~lIA~~S~Gd~R~ALn  219 (944)
T PRK14949        161 KLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL--PFEAEALTLLAKAANGSMRDALS  219 (944)
T ss_pred             hchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            33322 223467999999999999999886643221  22346678899999999864433

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

Probab=98.75  E-value=1.2e-06  Score=92.89  Aligned_cols=172  Identities=26%  Similarity=0.330  Sum_probs=101.8

Q ss_pred             HHhhhchhHHHH---HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          142 LKELVGIESRLE---KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       142 i~~~vGR~~~l~---~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ...|+|.+..+.   .+.+.+..  +..+.+.|+|++|+||||||+.+++.....|.   .+. .  .  ..+. ..   
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~--~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~ln-a--~--~~~i-~d---   92 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLN-A--V--LAGV-KD---   92 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eeh-h--h--hhhh-HH---
Confidence            467899988774   46666663  34567899999999999999999987654431   111 0  0  0000 00   


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHH--hcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEE--EcCCHh--HH
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRL--RQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIII--TTRDEH--LL  290 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~ili--TtR~~~--~~  290 (483)
                                      ...........+  .+++.+|||||++  +..+.+.+++.+.   .+..++|  ||.++.  +.
T Consensus        93 ----------------ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~  153 (725)
T PRK13341         93 ----------------LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVN  153 (725)
T ss_pred             ----------------HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhh
Confidence                            111111111111  2457799999996  4455566665443   3444554  344432  11


Q ss_pred             h-hCCCcceEecCCCChHHHHHHHHHhhcc-----CCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          291 K-LHRVEEVFKLEALTYDEAFQLFCLKAFE-----TQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       291 ~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~-----~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      . .......+.+++|+.++...++.+.+..     .........+....|++.+.|+.--+.
T Consensus       154 ~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        154 KALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             hHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            1 1123457899999999999999876631     011122345677889999999865443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.73  E-value=9.6e-07  Score=85.90  Aligned_cols=198  Identities=16%  Similarity=0.113  Sum_probs=111.3

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|-+...+.+...+..+. ....+.|+|+.|+||||+|..+++.+-..-+. ..-..  ......+. ......+.
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~-~~~~~--~~~~~~~~-c~~c~~i~   96 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDP-AEAPE--TLADPDPA-SPVWRQIA   96 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCcc-ccCcc--ccCCCCCC-CHHHHHHH
Confidence            3689999999999999988542 35679999999999999999999876442100 00000  00000000 11111111


Q ss_pred             HH-------HhcccCC------CccchhhhHHHHHHHHh-----cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEE
Q 038919          222 SD-------LLKLADN------SIRNVYDGINMIGRRLR-----QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRII  281 (483)
Q Consensus       222 ~~-------~~~~~~~------~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~il  281 (483)
                      ..       +......      ..-.+++ +..+.+.+.     ++.-++|+|+++.  ......++..+.....++.+|
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fi  175 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFI  175 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEE
Confidence            11       0000000      0001122 222333332     4566999999974  344555555444334455555


Q ss_pred             EEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          282 ITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       282 iTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ++|.++ .+... ......+++.+++.++..+++........    ...+.+..+++.++|.|.....+.
T Consensus       176 Lit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~----~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        176 LISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG----SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC----CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            544433 23222 22345799999999999999987432211    223557789999999998665443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.72  E-value=1e-06  Score=85.25  Aligned_cols=177  Identities=15%  Similarity=0.176  Sum_probs=109.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-----cceeEEEEecccccccCCcHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-----FDGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      ..++|-+...+.+.+.+..+ .-.....++|+.|+||||+|..+++.+-..     ++....+....+  ....  ..-.
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-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINK--KSIG--VDDI   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccC--CCCC--HHHH
Confidence            46789888889999988743 235678999999999999999999875321     222212211000  0000  1111


Q ss_pred             HHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcCCHhHH-hh-C
Q 038919          218 KQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTRDEHLL-KL-H  293 (483)
Q Consensus       218 ~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~-~~-~  293 (483)
                      +.+...+...                 -..+++-++|+|+++  +.+....|+..+....+++.+|++|.+...+ +. .
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            1222111000                 012344567777774  5566777877777667788888888765432 11 2


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      .....+++.+++.++...++.....+      ...+.+..++..++|.|.-+..
T Consensus       142 SRc~~~~~~~~~~~~~~~~l~~~~~~------~~~~~~~~l~~~~~g~~~~a~~  189 (313)
T PRK05564        142 SRCQIYKLNRLSKEEIEKFISYKYND------IKEEEKKSAIAFSDGIPGKVEK  189 (313)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHHhcC------CCHHHHHHHHHHcCCCHHHHHH
Confidence            33468999999999999988765421      1124467789999999865543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.71  E-value=2.9e-06  Score=83.85  Aligned_cols=194  Identities=16%  Similarity=0.135  Sum_probs=110.2

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|.+..++.+.+++..+. -.+.+.++|++|+|||++|+.++..+...-.. .+        ...+. ......+.
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~-~~--------~~c~~-c~~c~~~~   81 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGP-DG--------EPCNE-CESCKEIN   81 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCC-CC--------CCCCC-CHHHHHHh
Confidence            3678999999999999887532 24678899999999999999999876422000 00        00000 00000000


Q ss_pred             HH----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-H
Q 038919          222 SD----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-L  289 (483)
Q Consensus       222 ~~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~  289 (483)
                      ..    +............+ ...+.+.+     .+++-++|+|+++..  .....++..+....+.+.+|++|.+.. +
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l  160 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDD-IREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKI  160 (355)
T ss_pred             cCCCCCEEEeeccccCCHHH-HHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHH
Confidence            00    00000000001111 11111111     234558999999644  445566555544355667667765543 2


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ... ......+++.+++.++..+++...+-.....  ...+.+..+++.++|.|..+....
T Consensus       161 ~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~--i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       161 PATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK--IEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             HHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCChHHHHHHH
Confidence            222 2234578899999999999998866433221  224678889999999997665443

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.

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

Probab=98.70  E-value=2.4e-07  Score=82.24  Aligned_cols=177  Identities=24%  Similarity=0.223  Sum_probs=97.7

Q ss_pred             HhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      .+|||-++.++.+.-++..   .......+.+||+||+||||||.-+++.+...|..   .. .. ...  .. .++.  
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~---~s-g~-~i~--k~-~dl~--   93 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKI---TS-GP-AIE--KA-GDLA--   93 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEE---EE-CC-C----SC-HHHH--
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEe---cc-ch-hhh--hH-HHHH--
Confidence            6799999988887765543   23346789999999999999999999988766531   11 00 000  01 1111  


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCC--------CCCc-----------
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWF--------GPGS-----------  278 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~--------~~~~-----------  278 (483)
                                          ..+. .+ +++.+|.+|.+..  ..+-+.|.+.+..+        +++.           
T Consensus        94 --------------------~il~-~l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FT  151 (233)
T PF05496_consen   94 --------------------AILT-NL-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFT  151 (233)
T ss_dssp             --------------------HHHH-T---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----E
T ss_pred             --------------------HHHH-hc-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCce
Confidence                                1111 11 2455888899964  34444444433211        2221           


Q ss_pred             EEEEEcCCHhHHhhCC--CcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhC
Q 038919          279 RIIITTRDEHLLKLHR--VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLF  353 (483)
Q Consensus       279 ~iliTtR~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~  353 (483)
                      -|=-|||...+.....  ..-+.+++..+.+|-.+++.+.+..-.  -+...+.+.+|+..|.|-|--..-+-..++
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~--i~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN--IEIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC--CCcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            2334777544332222  223458999999999999987764433  234567899999999999976665555543

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.69  E-value=1.2e-06  Score=86.36  Aligned_cols=187  Identities=12%  Similarity=0.069  Sum_probs=106.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCC--------CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCN--------DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVI  214 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  214 (483)
                      ..++|-+..++.|.+++..+.+        -.+.+.++|++|+|||++|..++..+--....   ...+       +. .
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~---~~~C-------g~-C   73 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD---EPGC-------GE-C   73 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC---CCCC-------CC-C
Confidence            5689999999999999886431        25678999999999999999999865322110   0000       00 0


Q ss_pred             HHHHHHHHHHhc----c-cCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEE
Q 038919          215 SLQKQLISDLLK----L-ADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIII  282 (483)
Q Consensus       215 ~l~~~ll~~~~~----~-~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~ili  282 (483)
                      .....+......    . .....-..++. ..+.+.+     .+++-++|+|+++..  .....|+..+....+++.+|+
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            000000000000    0 00000111111 1122222     234558888999743  444556555544456676766


Q ss_pred             EcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          283 TTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       283 TtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      +|.+. .+.+. ......+.+.+++.++..+.+.....   .    ..+.+..++..++|.|.....+
T Consensus       153 ~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~---~----~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        153 CAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG---V----DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             EECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC---C----CHHHHHHHHHHcCCCHHHHHHH
Confidence            66654 33322 23346899999999999999875431   1    1245778899999999654433

>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=98.69  E-value=2.2e-07  Score=78.82  Aligned_cols=122  Identities=20%  Similarity=0.208  Sum_probs=69.5

Q ss_pred             hchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHh
Q 038919          146 VGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLL  225 (483)
Q Consensus       146 vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~  225 (483)
                      +|++..+..+...+...  ..+.+.|+|++|+|||+|++.+++.+..... .+++.+........     ........  
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~-~v~~~~~~~~~~~~-----~~~~~~~~--   70 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELFRPGA-PFLYLNASDLLEGL-----VVAELFGH--   70 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhhcCCC-CeEEEehhhhhhhh-----HHHHHhhh--
Confidence            47888899998887643  3468999999999999999999998753322 33333222211110     00000000  


Q ss_pred             cccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-----HHHHHHhcCCCCC---CCCcEEEEEcCCH
Q 038919          226 KLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-----EQLRRLAGKRDWF---GPGSRIIITTRDE  287 (483)
Q Consensus       226 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----~~~~~l~~~~~~~---~~~~~iliTtR~~  287 (483)
                        .        ............++.++|+||++..     ..+...+......   ..+..+|+||...
T Consensus        71 --~--------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          71 --F--------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             --h--------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence              0        0011111222456789999999853     2233333333221   3577888888854

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=3e-06  Score=85.72  Aligned_cols=197  Identities=16%  Similarity=0.114  Sum_probs=108.8

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ....+||.+...+.|...+..+. -.+.+.++|++|+||||+|+.+++.+...-..  .+.       +.+. ......+
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~--~~~-------pc~~-c~~c~~i   80 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRK--GVE-------PCNE-CRACRSI   80 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCC--CCC-------CCcc-cHHHHHH
Confidence            34789999988888888877432 23568999999999999999999875321000  000       0000 0000000


Q ss_pred             HH----HHhcccCCCccchhhhHHHHHHH-----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-h
Q 038919          221 IS----DLLKLADNSIRNVYDGINMIGRR-----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-H  288 (483)
Q Consensus       221 l~----~~~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~  288 (483)
                      ..    .+...........+.. ..+.+.     ..+++-++|+|+++..  +....|+..+....+...+|++|.++ .
T Consensus        81 ~~g~~~dv~el~aa~~~gid~i-R~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~k  159 (472)
T PRK14962         81 DEGTFMDVIELDAASNRGIDEI-RKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEK  159 (472)
T ss_pred             hcCCCCccEEEeCcccCCHHHH-HHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHh
Confidence            00    0000000001111111 112222     1245679999999754  44566665555434455555454443 2


Q ss_pred             HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHHHHHHH
Q 038919          289 LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALKVLGSF  351 (483)
Q Consensus       289 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~la~~  351 (483)
                      +... ......+++.+++.++....+...+.....  ....+....|++.++|. +.++..+-..
T Consensus       160 l~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi--~i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        160 VPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI--EIDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             hhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            2222 234467899999999999999887643322  12345677888877655 5666666543

>PRK08727 hypothetical protein; Validated

Probab=98.68  E-value=9.8e-07  Score=81.29  Aligned_cols=168  Identities=15%  Similarity=0.125  Sum_probs=95.2

Q ss_pred             HhhhchhH-HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIES-RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~-~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ++|++... .+..+......  .....+.|+|++|+|||.|+.++++..........|+. ..          .....+.
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~--~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-~~----------~~~~~~~   85 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAG--QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-LQ----------AAAGRLR   85 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhc--cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-HH----------HhhhhHH
Confidence            34554443 33333333321  12356999999999999999999988766544444543 11          1111100


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----HHHHHHhcCCCC-CCCCcEEEEEcCCHh--------
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----EQLRRLAGKRDW-FGPGSRIIITTRDEH--------  288 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----~~~~~l~~~~~~-~~~~~~iliTtR~~~--------  288 (483)
                      .                  .+ +.+ .+.-+|||||++..    ..-..++..+.. ...+..+|+|++...        
T Consensus        86 ~------------------~~-~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~  145 (233)
T PRK08727         86 D------------------AL-EAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLP  145 (233)
T ss_pred             H------------------HH-HHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhH
Confidence            0                  01 111 23348999999632    211222221111 134667999998531        


Q ss_pred             -HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          289 -LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       289 -~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                       +.........+++++++.++-.+++.+++.....  ....+...-|++.++|-.-.+
T Consensus       146 dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l--~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        146 DLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRGL--ALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHH
Confidence             2222223457899999999999999987643221  233466777888887665554

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.68  E-value=1.1e-06  Score=89.07  Aligned_cols=199  Identities=17%  Similarity=0.169  Sum_probs=112.6

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHH
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      .|....++||-+..++.|...+..+. -.+.+.++|++|+||||+|+.+++.+.......-     .......+. ....
T Consensus        16 RP~~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~-----~~~~~~C~~-C~~C   88 (507)
T PRK06645         16 RPSNFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITE-----NTTIKTCEQ-CTNC   88 (507)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCcccccc-----CcCcCCCCC-ChHH
Confidence            33444789999999999998877442 2467899999999999999999987632210000     000000000 0000


Q ss_pred             HHHHHH----HhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEE-EcCC
Q 038919          218 KQLISD----LLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIII-TTRD  286 (483)
Q Consensus       218 ~~ll~~----~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~ili-TtR~  286 (483)
                      ..+...    +...........++....+...    +.+++-++|+|+++..  ..+..|+..+....+.+.+|+ ||+.
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            000000    0000000111122222222111    2245678999999753  556666655554455666554 4444


Q ss_pred             HhHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          287 EHLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       287 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ..+... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+.-+
T Consensus       169 ~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~--ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        169 QKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLK--TDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            444332 2234578999999999999998887543322  23356778999999987544

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

Probab=98.67  E-value=3.1e-07  Score=85.81  Aligned_cols=172  Identities=20%  Similarity=0.300  Sum_probs=101.6

Q ss_pred             HhhhchhHHHHH---HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEK---LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~---l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      .++||.+..+.+   |.+++.  .+..+.+.+||++|+||||||+.++..-..+-   +++..++.....    ..-.+.
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            556666654433   333444  34678899999999999999999998765542   223222222111    111112


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEE--EcCCHhHH---hh
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIII--TTRDEHLL---KL  292 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~ili--TtR~~~~~---~~  292 (483)
                      +..+.-                -...+.+++.+|.+|.|.  +..|-+.|++...   .|..++|  ||-|+..-   ..
T Consensus       209 ife~aq----------------~~~~l~krkTilFiDEiHRFNksQQD~fLP~VE---~G~I~lIGATTENPSFqln~aL  269 (554)
T KOG2028|consen  209 IFEQAQ----------------NEKSLTKRKTILFIDEIHRFNKSQQDTFLPHVE---NGDITLIGATTENPSFQLNAAL  269 (554)
T ss_pred             HHHHHH----------------HHHhhhcceeEEEeHHhhhhhhhhhhcccceec---cCceEEEecccCCCccchhHHH
Confidence            211100                112346889999999995  5566677777653   5666665  77776431   12


Q ss_pred             CCCcceEecCCCChHHHHHHHHHhhc---cCCC---C-Cc----hHHHHHHHHHHHhCCCh
Q 038919          293 HRVEEVFKLEALTYDEAFQLFCLKAF---ETQK---P-RE----EYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~L~~~~~~---~~~~---~-~~----~~~~~~~~i~~~~~G~P  342 (483)
                      .....++.|++|+.++...++.+...   ....   + +.    ....+.+-++..|.|-.
T Consensus       270 lSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  270 LSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             HhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            23456889999999999999877321   1111   1 11    23345555667777764

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.66  E-value=8.4e-07  Score=89.47  Aligned_cols=165  Identities=16%  Similarity=0.161  Sum_probs=98.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccc-eeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFD-GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|..|+|||.|+.++++.+....+ ..+.+...          ..+...+...+....        .....+.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~----------~~f~~~~~~~l~~~~--------~~~~~~~~  202 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG----------DEFARKAVDILQKTH--------KEIEQFKN  202 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHHHHHHHHHhh--------hHHHHHHH
Confidence            356899999999999999999997654322 22222211          333344433322100        11223333


Q ss_pred             HHhcCceEEEEcCCCCH-------HHHHHHhcCCCCCCCCcEEEEEcCCH-hH--------HhhCCCcceEecCCCChHH
Q 038919          245 RLRQKKVLLVIDDVAHV-------EQLRRLAGKRDWFGPGSRIIITTRDE-HL--------LKLHRVEEVFKLEALTYDE  308 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~-------~~~~~l~~~~~~~~~~~~iliTtR~~-~~--------~~~~~~~~~~~l~~L~~~e  308 (483)
                      .++ ..-+|||||+...       +.+..++..+.  ..+..||+|+... ..        ...+...-++.+++++.++
T Consensus       203 ~~~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~--~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~  279 (450)
T PRK14087        203 EIC-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFI--ENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKT  279 (450)
T ss_pred             Hhc-cCCEEEEeccccccCCHHHHHHHHHHHHHHH--HcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHH
Confidence            344 3448889999532       22333333222  3455788887643 11        2222344567899999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      -.+++.+.+-.........++...-|++.++|.|-.+.-+...
T Consensus       280 r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~  322 (450)
T PRK14087        280 ATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSR  322 (450)
T ss_pred             HHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHH
Confidence            9999998874422111244578888999999999888765543

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.66  E-value=9e-07  Score=91.55  Aligned_cols=194  Identities=19%  Similarity=0.145  Sum_probs=109.7

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...+||.+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+.-.-... . .    .+   +. ......+.
T Consensus        15 FddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-~-~----pC---g~-C~sCr~i~   83 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH-G-E----PC---GV-CQSCTQID   83 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-C-C----CC---cc-cHHHHHHh
Confidence            4789999999999999988542 246789999999999999999998653211000 0 0    00   00 00000000


Q ss_pred             H----HHhcccCCCccchhhhHHHHHH---H-HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HH
Q 038919          222 S----DLLKLADNSIRNVYDGINMIGR---R-LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LL  290 (483)
Q Consensus       222 ~----~~~~~~~~~~~~~~~~~~~l~~---~-l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~  290 (483)
                      .    .+...........+...+.+..   . ..+++-++|||+++..  .....|+..+......+++|++|.+.. +.
T Consensus        84 ~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~  163 (709)
T PRK08691         84 AGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVP  163 (709)
T ss_pred             ccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccc
Confidence            0    0000000011111111111111   1 1245669999999754  334455544443345667777665442 22


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .. .+....+.+.+++.++....+.+.+......  ...+.+..|++.++|.+.-+..+
T Consensus       164 ~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~--id~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        164 VTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA--YEPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             hHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHhCCCHHHHHHH
Confidence            11 1223457888999999999998877543322  23466788999999998555433

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

Probab=98.66  E-value=1.8e-07  Score=77.97  Aligned_cols=114  Identities=19%  Similarity=0.251  Sum_probs=70.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc----ceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF----DGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f----~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      .+.+.|+|++|+|||+++.++++.....+    ...+++.++....   .. ..+...++..+...... ..+.....+.
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~i~~~l~~~~~~-~~~~~~l~~~   78 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR---TP-RDFAQEILEALGLPLKS-RQTSDELRSL   78 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS---SH-HHHHHHHHHHHT-SSSS-TS-HHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC---CH-HHHHHHHHHHhCccccc-cCCHHHHHHH
Confidence            47899999999999999999999775431    3334444343322   22 67777777775443332 3455666677


Q ss_pred             HHHHHhcCce-EEEEcCCCCH---HHHHHHhcCCCCCCCCcEEEEEcCC
Q 038919          242 IGRRLRQKKV-LLVIDDVAHV---EQLRRLAGKRDWFGPGSRIIITTRD  286 (483)
Q Consensus       242 l~~~l~~~~~-LlVlDdv~~~---~~~~~l~~~~~~~~~~~~iliTtR~  286 (483)
                      +.+.+...+. +||+|+++..   +.++.+.....  ..+.++|+..+.
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            7777776655 9999999765   33444433222  567778887764

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=1.9e-06  Score=86.81  Aligned_cols=190  Identities=18%  Similarity=0.143  Sum_probs=109.8

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...+||-+..++.|.+.+..+. -.+.+.++|+.|+||||+|+.++..+--.+...         ....+. ......+.
T Consensus        12 f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~---------~~pCg~-C~~C~~i~   80 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPT---------SDPCGT-CHNCISIK   80 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCC---------CCCccc-cHHHHHHh
Confidence            4789999999999998887542 245899999999999999999988642211100         000000 00001110


Q ss_pred             HHH----hcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCC-HhH
Q 038919          222 SDL----LKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRD-EHL  289 (483)
Q Consensus       222 ~~~----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~-~~~  289 (483)
                      ...    ...........++... +.+..     .++.-++|+|+++.  ....+.|+..+..-.+.+.+|++|.+ +.+
T Consensus        81 ~~~~~Dv~eidaas~~~vddIR~-Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl  159 (491)
T PRK14964         81 NSNHPDVIEIDAASNTSVDDIKV-ILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKI  159 (491)
T ss_pred             ccCCCCEEEEecccCCCHHHHHH-HHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHH
Confidence            000    0000000111111111 11111     24556899999964  34566666665544566766665543 333


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+.-+
T Consensus       160 ~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~--i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        160 PVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE--HDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             HHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            322 2344678999999999999998877543322  23456788999999988643

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.63  E-value=1.4e-06  Score=86.88  Aligned_cols=199  Identities=16%  Similarity=0.138  Sum_probs=110.5

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc--cceeEEEEecccccccCCcHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE--FDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ....++|-+...+.|.+++..+. -...+.++|++|+||||+|..+++.+.-.  +...-|..+....+   +. .....
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c---~~-c~~c~   88 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPC---GE-CESCR   88 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCC---CC-CHHHH
Confidence            34689999999999999888542 24568899999999999999999876431  10000100000000   00 01111


Q ss_pred             HHHHHH----hcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEc-CC
Q 038919          219 QLISDL----LKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITT-RD  286 (483)
Q Consensus       219 ~ll~~~----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTt-R~  286 (483)
                      .+....    ...........++..+ +.+.+     .+.+-++|+|+++.  ....+.++..+....+.+.+|++| +.
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~  167 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTEL  167 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            111000    0000001111222222 22223     24456889999964  345666665555445566666555 43


Q ss_pred             HhHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          287 EHLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       287 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      ..+... ......+++.+++.++..+.+...+.....  ....+.+..+++.++|.+--+..
T Consensus       168 ~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~--~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        168 HKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGI--SVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            333322 122356889999999999988876633221  13346788899999998864433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=1.9e-06  Score=88.13  Aligned_cols=194  Identities=14%  Similarity=0.127  Sum_probs=109.8

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|-+..++.|...+..+ .....+.++|++|+||||+|+.+++.+.......         ....+. ......+.
T Consensus        15 f~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~---------~~pCg~-C~sC~~i~   83 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVT---------AEPCNK-CENCVAIN   83 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC---------CCCCcc-cHHHHHHh
Confidence            368999999999999988753 2245688999999999999999998654211000         000000 00000000


Q ss_pred             H----HHhcc---cCCCccchhhhHHHHHHH-HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHH
Q 038919          222 S----DLLKL---ADNSIRNVYDGINMIGRR-LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLL  290 (483)
Q Consensus       222 ~----~~~~~---~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~  290 (483)
                      .    .+...   ......+.....+.+... ..+++-++|+|+++.  ......|+..+......+.+|++|.+. .+.
T Consensus        84 ~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil  163 (546)
T PRK14957         84 NNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIP  163 (546)
T ss_pred             cCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhh
Confidence            0    00000   000011111122222111 235667999999974  455666666665445566666544433 333


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVL  348 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~l  348 (483)
                      .. ......+++.+++.++..+.+...+.....  ....+....|++.++|.+- ++..+
T Consensus       164 ~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi--~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        164 VTILSRCIQLHLKHISQADIKDQLKIILAKENI--NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             hhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            22 234568999999999999888876543221  2234567788999999774 44443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=7.7e-06  Score=84.84  Aligned_cols=197  Identities=15%  Similarity=0.142  Sum_probs=111.1

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++||-+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+--.-+..  ....  .....+. ......+.
T Consensus        15 f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~--~~~~--~~~pCg~-C~~C~~i~   88 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDG--QGGI--TATPCGV-CQACRDID   88 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCccc--ccCC--CCCCCCc-cHHHHHHH
Confidence            3689999999999999988542 246789999999999999999988653210000  0000  0000000 01111110


Q ss_pred             H----HHhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCC-HhH
Q 038919          222 S----DLLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRD-EHL  289 (483)
Q Consensus       222 ~----~~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~-~~~  289 (483)
                      .    .+...........++..+.+ +..     .++.-++|||+++.  ......|+..+..-...+.+|++|.+ ..+
T Consensus        89 ~g~h~D~~eldaas~~~Vd~iReli-~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         89 SGRFVDYTELDAASNRGVDEVQQLL-EQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             cCCCCceeecCcccccCHHHHHHHH-HHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            0    00000000011122221211 111     13455899999974  45667777666554556666665544 333


Q ss_pred             Hh-hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          290 LK-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       290 ~~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      .. .......+++.+++.++..+.+...+......  ...+.+..|++.++|.+.-+..
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~--ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP--AEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            22 22344679999999999999998776443322  2235678889999998755443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.61  E-value=3e-06  Score=75.50  Aligned_cols=88  Identities=18%  Similarity=0.254  Sum_probs=60.6

Q ss_pred             cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          248 QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       248 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      +.+-++|+||++..  +..+.|+..+....+.+.+|++|++. .+... ......+.+.+++.++..+.+....    . 
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g----i-  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG----I-  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC----C-
Confidence            45668999999643  44566666655545667777777654 22221 1234689999999999999998771    1 


Q ss_pred             CchHHHHHHHHHHHhCCChH
Q 038919          324 REEYVHLSQLVVNYAGGLPL  343 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PL  343 (483)
                         ..+.+..+++.++|.|.
T Consensus       170 ---~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       170 ---SEEAAELLLALAGGSPG  186 (188)
T ss_pred             ---CHHHHHHHHHHcCCCcc
Confidence               13568899999999985

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.61  E-value=2e-06  Score=85.40  Aligned_cols=171  Identities=15%  Similarity=0.248  Sum_probs=98.6

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|++.+++++.+.+..           +-..++-+.|+|++|+|||++|++++++....|    +....        
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~----i~v~~--------  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF----IRVVG--------  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCE----EEeeh--------
Confidence            5789999999999886532           112356689999999999999999999765432    11111        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH-------------H---HHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV-------------E---QLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~-------------~---~~~~l~~~~~~~  274 (483)
                        ..+    .....+       ....... .+...-...+.+|+||+++..             +   .+..++..+..+
T Consensus       199 --~~l----~~~~~g-------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~  265 (389)
T PRK03992        199 --SEL----VQKFIG-------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF  265 (389)
T ss_pred             --HHH----hHhhcc-------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhcccc
Confidence              111    111111       0011111 122222356889999999753             1   122333222211


Q ss_pred             --CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          275 --GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       275 --~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                        ..+..||.||........     ...+..+.+++.+.++-.++|+.+..+......   .....+++.+.|.
T Consensus       266 ~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~---~~~~~la~~t~g~  336 (389)
T PRK03992        266 DPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD---VDLEELAELTEGA  336 (389)
T ss_pred             CCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc---CCHHHHHHHcCCC
Confidence              235667777765432211     123567999999999999999987754332221   1145566666664

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=1.5e-06  Score=90.23  Aligned_cols=192  Identities=19%  Similarity=0.152  Sum_probs=110.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...+||-+..++.|.+.+..+. -...+.++|+.|+||||+|+.+++.+-.....         .....+. ......+.
T Consensus        15 f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~---------~~~pCg~-C~~C~~i~   83 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI---------TATPCGE-CDNCREIE   83 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC---------CCCCCCC-CHHHHHHH
Confidence            3689999999999999888542 24567899999999999999999865432100         0000000 11111111


Q ss_pred             HH----HhcccC---CCccchhhhHHHHHHH-HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHH
Q 038919          222 SD----LLKLAD---NSIRNVYDGINMIGRR-LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLL  290 (483)
Q Consensus       222 ~~----~~~~~~---~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~  290 (483)
                      ..    +.....   ....+..+....+... ..++.-++|||+++.  ......|+..+..-...+++|++|.+. .+.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            00    000000   0111111111111111 235667999999974  456666666555445566666655544 333


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      .. ......+.+.+|+.++..+.+...+......  ...+....|+..++|.+--..
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~--~e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQIP--FEPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            22 2334679999999999999998766332211  223567789999999886443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=5.8e-06  Score=84.55  Aligned_cols=192  Identities=16%  Similarity=0.091  Sum_probs=107.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...+||-+..++.|.+++..+. -...+.++|++|+||||+|+.+++.+--.-...         ....+. ......+.
T Consensus        15 f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---------~~pCg~-C~~C~~i~   83 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVS---------ANPCND-CENCREID   83 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------cccCCC-CHHHHHHh
Confidence            3689999999999999997542 245688999999999999999998653210000         000000 00000000


Q ss_pred             HH----HhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHH
Q 038919          222 SD----LLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLL  290 (483)
Q Consensus       222 ~~----~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~  290 (483)
                      ..    +...........++..+.+...    ..++.-++|+|+++.  .+....++..+....+.+++|++|.+. .+.
T Consensus        84 ~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~  163 (509)
T PRK14958         84 EGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLP  163 (509)
T ss_pred             cCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhch
Confidence            00    0000000011111111111110    124556899999974  455666666555445677777665543 222


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      .. ......+++.+++.++....+...+......  ...+....|++.++|.+.-+.
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~--~~~~al~~ia~~s~GslR~al  218 (509)
T PRK14958        164 VTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE--FENAALDLLARAANGSVRDAL  218 (509)
T ss_pred             HHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHH
Confidence            11 1233568899999999888877666433322  223557788999999885443

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=6.6e-06  Score=85.58  Aligned_cols=196  Identities=15%  Similarity=0.128  Sum_probs=108.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc--cceeEEEEecccccccCCcHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE--FDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ..+||-+..++.|.+++..+ .-...+.++|+.|+||||+|..+++.+.-.  .....|..+....+.   . ......+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg---~-C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCG---E-CESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCc---c-CHHHHHH
Confidence            68999999999999988743 224568899999999999999999876331  110111111000000   0 0111111


Q ss_pred             HHHH----hcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEc-CCHhH
Q 038919          221 ISDL----LKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITT-RDEHL  289 (483)
Q Consensus       221 l~~~----~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTt-R~~~~  289 (483)
                      ....    ...........++....+...    ..+.+-++|+||++..  ...+.|+..+..-.+.+.+|++| +...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            0000    000000111122222222111    1244558899999654  44566666555434555555544 43333


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ... ......+++.+++.++....+...+.....  ....+.+..+++.++|..--+
T Consensus       171 l~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi--~I~~eal~~La~~s~Gdlr~a  225 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI--QIDADALQLIARKAQGSMRDA  225 (620)
T ss_pred             hHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhCCCHHHH
Confidence            322 334568999999999999888876543221  123466788999999976533

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

Probab=98.57  E-value=1.5e-06  Score=79.12  Aligned_cols=160  Identities=19%  Similarity=0.191  Sum_probs=91.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccce-eEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDG-SSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|+.|+|||.|..++++.+....+. .+.+...          ......+...+..          .....+++
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~----------~~f~~~~~~~~~~----------~~~~~~~~   93 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA----------EEFIREFADALRD----------GEIEEFKD   93 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH----------HHHHHHHHHHHHT----------TSHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH----------HHHHHHHHHHHHc----------ccchhhhh
Confidence            4568899999999999999999987754432 3333211          2333333333221          11222444


Q ss_pred             HHhcCceEEEEcCCCCH---H----HHHHHhcCCCCCCCCcEEEEEcCCHh---------HHhhCCCcceEecCCCChHH
Q 038919          245 RLRQKKVLLVIDDVAHV---E----QLRRLAGKRDWFGPGSRIIITTRDEH---------LLKLHRVEEVFKLEALTYDE  308 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~---~----~~~~l~~~~~~~~~~~~iliTtR~~~---------~~~~~~~~~~~~l~~L~~~e  308 (483)
                      .+++ -=+|+|||++..   .    .+-.+...+.  ..|.++|+|++...         +.......-++++.+++.++
T Consensus        94 ~~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~--~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~  170 (219)
T PF00308_consen   94 RLRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLI--ESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDED  170 (219)
T ss_dssp             HHCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHH--HTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHH
T ss_pred             hhhc-CCEEEEecchhhcCchHHHHHHHHHHHHHH--hhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHH
Confidence            4443 348889999542   2    2222222221  35778999996431         22223345679999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                      -.+++.+.+......  -.++++.-+++.+.+..-.|..+-.
T Consensus       171 r~~il~~~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~~~l~  210 (219)
T PF00308_consen  171 RRRILQKKAKERGIE--LPEEVIEYLARRFRRDVRELEGALN  210 (219)
T ss_dssp             HHHHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC--CcHHHHHHHHHhhcCCHHHHHHHHH
Confidence            999999887543322  3446677788887777666654433

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=3.4e-06  Score=87.55  Aligned_cols=202  Identities=18%  Similarity=0.132  Sum_probs=114.7

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHH
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      .|.....++|.+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+.-.....-    ........+. ....
T Consensus        19 RP~~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~----~~~~~~~cg~-c~~C   92 (598)
T PRK09111         19 RPQTFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGD----GGPTIDLCGV-GEHC   92 (598)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCcccc----CCCccccCcc-cHHH
Confidence            33444789999999999999988542 2457899999999999999999987643221000    0000000000 0111


Q ss_pred             HHHHHHH----hcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEc-C
Q 038919          218 KQLISDL----LKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITT-R  285 (483)
Q Consensus       218 ~~ll~~~----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTt-R  285 (483)
                      ..+....    ...........++..+ +.+.+     .+++-++|+|+++..  ...+.|+..+....+.+.+|++| .
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IRe-Iie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte  171 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIRE-IIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTE  171 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHH-HHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            1111100    0000001111222111 21222     234558999999643  45666665555445667666555 4


Q ss_pred             CHhHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          286 DEHLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       286 ~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      ...+... ......+++.+++.++....+.+.+......  ...+.+..|++.++|.+.-+...
T Consensus       172 ~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~--i~~eAl~lIa~~a~Gdlr~al~~  233 (598)
T PRK09111        172 IRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE--VEDEALALIARAAEGSVRDGLSL  233 (598)
T ss_pred             hhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3333322 2234678999999999999998876443222  23366788999999998655433

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.57  E-value=3e-06  Score=78.22  Aligned_cols=164  Identities=16%  Similarity=0.195  Sum_probs=94.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      .+..+.++...  ...+.+.|+|++|+|||+|+..+++..........|+. +...       .....            
T Consensus        32 a~~~l~~~~~~--~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~-~~~~-------~~~~~------------   89 (235)
T PRK08084         32 LLAALQNALRQ--EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP-LDKR-------AWFVP------------   89 (235)
T ss_pred             HHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE-HHHH-------hhhhH------------
Confidence            33444444432  23467899999999999999999987765433334433 2110       00000            


Q ss_pred             CccchhhhHHHHHHHHhcCceEEEEcCCCCH---HH----HHHHhcCCCCCCCCcEEEEEcCCHh---------HHhhCC
Q 038919          231 SIRNVYDGINMIGRRLRQKKVLLVIDDVAHV---EQ----LRRLAGKRDWFGPGSRIIITTRDEH---------LLKLHR  294 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~----~~~l~~~~~~~~~~~~iliTtR~~~---------~~~~~~  294 (483)
                            +    +.+.+.+ --+|+|||++..   ..    +..++..... ....++|+||+.+.         +...+.
T Consensus        90 ------~----~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e-~g~~~li~ts~~~p~~l~~~~~~L~SRl~  157 (235)
T PRK08084         90 ------E----VLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILE-SGRTRLLITGDRPPRQLNLGLPDLASRLD  157 (235)
T ss_pred             ------H----HHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHH-cCCCeEEEeCCCChHHcCcccHHHHHHHh
Confidence                  0    1111111 238899999542   22    2222222111 12347899988542         223334


Q ss_pred             CcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          295 VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       295 ~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                      ...++++.+++.++-.+++.+++....  -.-.+++..-|++.+.|..-.+..+-.
T Consensus       158 ~g~~~~l~~~~~~~~~~~l~~~a~~~~--~~l~~~v~~~L~~~~~~d~r~l~~~l~  211 (235)
T PRK08084        158 WGQIYKLQPLSDEEKLQALQLRARLRG--FELPEDVGRFLLKRLDREMRTLFMTLD  211 (235)
T ss_pred             CCceeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhhcCCHHHHHHHHH
Confidence            456899999999999999987664322  123346777888888887766654443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=5.9e-06  Score=84.68  Aligned_cols=194  Identities=16%  Similarity=0.087  Sum_probs=107.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|.+..++.+.+++..+. -.+.+.++|++|+||||+|..+++.+...-...     .    ...+. ......+.
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~-----~----~~Cg~-C~sCr~i~   83 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKD-----G----DCCNS-CSVCESIN   83 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCC-----C----CCCcc-cHHHHHHH
Confidence            3689999999999999887532 246789999999999999999998764211000     0    00000 11111111


Q ss_pred             HHH----hcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hH
Q 038919          222 SDL----LKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HL  289 (483)
Q Consensus       222 ~~~----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~  289 (483)
                      ...    ...........++. ..+.+.+     .+++-++|+|+++.  ......|+..+....+.+.+|++|... .+
T Consensus        84 ~~~h~DiieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KL  162 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKI  162 (605)
T ss_pred             cCCCCceEEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhh
Confidence            000    00000000111111 1111111     12334799999964  345555555444334456565555433 33


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVLG  349 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~la  349 (483)
                      ... ......+++.+++.++....+...+......  ...+.+..+++.++|.+. |+..+-
T Consensus       163 l~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~--Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        163 PLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIK--IEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             hHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            222 2344678999999999999988766433211  223567889999999775 444443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=2e-05  Score=81.51  Aligned_cols=195  Identities=17%  Similarity=0.138  Sum_probs=110.9

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ....+||.+..++.|.+++..+. -...+.++|+.|+||||+|+.++..+.-.....         ....+. ......+
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---------~~pCg~-C~~C~~i   79 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPT---------ATPCGV-CESCVAL   79 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---------CCcccc-cHHHHHh
Confidence            34789999999999999988532 245678999999999999999998654211000         000000 0001111


Q ss_pred             HHH------HhcccCC---CccchhhhHHHHHHH-HhcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcC-CH
Q 038919          221 ISD------LLKLADN---SIRNVYDGINMIGRR-LRQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTR-DE  287 (483)
Q Consensus       221 l~~------~~~~~~~---~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR-~~  287 (483)
                      ...      +......   ...+..+..+.+... ..+++-++|+|+++  +.+..+.|+..+......+.+|++|. ..
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            000      0000000   111111111111111 12455689999996  34566666666654455666665554 34


Q ss_pred             hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHH
Q 038919          288 HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVL  348 (483)
Q Consensus       288 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~l  348 (483)
                      .+... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+- ++..+
T Consensus       160 kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~--i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        160 KVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVV--VDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             hhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            43322 2345679999999999999988766443321  223567778999999885 44444

>PRK05642 DNA replication initiation factor; Validated

Probab=98.55  E-value=2.3e-06  Score=78.85  Aligned_cols=151  Identities=17%  Similarity=0.233  Sum_probs=89.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+.+.|+|.+|+|||.|+..+++.+......++|+. .          ..+..    .               ...+.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~-~----------~~~~~----~---------------~~~~~~~   94 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP-L----------AELLD----R---------------GPELLDN   94 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee-H----------HHHHh----h---------------hHHHHHh
Confidence            367899999999999999999987765433444443 1          11111    0               0112223


Q ss_pred             HhcCceEEEEcCCCCH---HH----HHHHhcCCCCCCCCcEEEEEcCCHhH---------HhhCCCcceEecCCCChHHH
Q 038919          246 LRQKKVLLVIDDVAHV---EQ----LRRLAGKRDWFGPGSRIIITTRDEHL---------LKLHRVEEVFKLEALTYDEA  309 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~---~~----~~~l~~~~~~~~~~~~iliTtR~~~~---------~~~~~~~~~~~l~~L~~~ea  309 (483)
                      +.+-. +||+||+...   ..    +-.+...+.  ..|..+|+|++....         ........++++++++.++-
T Consensus        95 ~~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~--~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~  171 (234)
T PRK05642         95 LEQYE-LVCLDDLDVIAGKADWEEALFHLFNRLR--DSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDK  171 (234)
T ss_pred             hhhCC-EEEEechhhhcCChHHHHHHHHHHHHHH--hcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHH
Confidence            33333 6789999522   12    323332221  346778888875321         11122335788999999999


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          310 FQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       310 ~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      .+++..++.....  ...+++..-+++.+.|..-.+..+-..
T Consensus       172 ~~il~~ka~~~~~--~l~~ev~~~L~~~~~~d~r~l~~~l~~  211 (234)
T PRK05642        172 LRALQLRASRRGL--HLTDEVGHFILTRGTRSMSALFDLLER  211 (234)
T ss_pred             HHHHHHHHHHcCC--CCCHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            9999866543221  122466777888888877666554433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=1.4e-05  Score=83.78  Aligned_cols=195  Identities=17%  Similarity=0.124  Sum_probs=111.5

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...+||-+..++.|..++..+. -...+.++|+.|+||||+|+.+++.+.-.....        .....+. ......+.
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~--------~~~~c~~-c~~c~~i~   84 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP--------KGRPCGT-CEMCRAIA   84 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC--------CCCCCcc-CHHHHHHh
Confidence            3689999999999998887542 245678999999999999999998764211000        0000000 11111111


Q ss_pred             HHHhc----ccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hH
Q 038919          222 SDLLK----LADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HL  289 (483)
Q Consensus       222 ~~~~~----~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~  289 (483)
                      .....    .........++.. .+.+.+     .+++-++|+|+++.  .+..+.|+..+......+.+|+++.+. .+
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir-~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kl  163 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAR-EIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKV  163 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHH-HHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhh
Confidence            11000    0000011111111 122221     13456899999964  355666665555434566666655433 33


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ... ......+.+.+++.++....+...+......  ...+.+..+++.++|.+..+....
T Consensus       164 l~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~--i~~eal~~La~~s~Gdlr~al~~L  222 (585)
T PRK14950        164 PATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN--LEPGALEAIARAATGSMRDAENLL  222 (585)
T ss_pred             hHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            221 2234578899999999999888776443321  223667889999999997555443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.53  E-value=2.1e-06  Score=93.16  Aligned_cols=176  Identities=14%  Similarity=0.052  Sum_probs=97.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc------eeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD------GSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~------~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.++..+...|...  ...-+.++|++|+|||++|..+++++....-      ..+|..++.....        
T Consensus       187 d~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a--------  256 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA--------  256 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc--------
Confidence            68999999999999988753  3345679999999999999999998754321      1223222211100        


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH---------HH-HHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE---------QL-RRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~---------~~-~~l~~~~~~~~~~~~iliTt  284 (483)
                                 ...........+..+.+.+.  +.+++|++|+++..-         +. ..|.+.+.  ....++|-+|
T Consensus       257 -----------g~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~IgaT  323 (852)
T TIGR03345       257 -----------GASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIAAT  323 (852)
T ss_pred             -----------ccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEEec
Confidence                       00011112222222222222  468999999985431         11 12333332  2335566665


Q ss_pred             CCHhHHh-------hCCCcceEecCCCChHHHHHHHHHhhccCC--CCCchHHHHHHHHHHHhCCC
Q 038919          285 RDEHLLK-------LHRVEEVFKLEALTYDEAFQLFCLKAFETQ--KPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       285 R~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~--~~~~~~~~~~~~i~~~~~G~  341 (483)
                      .....-.       .....+.+.|++++.+++.++++.....-.  ..-....+....+++.+.+.
T Consensus       324 T~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       324 TWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             CHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            5432211       112346899999999999999754432111  11112234556666666554

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.

>PRK09087 hypothetical protein; Validated

Probab=98.52  E-value=7.9e-07  Score=81.25  Aligned_cols=141  Identities=15%  Similarity=0.096  Sum_probs=87.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+.+.|+|++|+|||+|++.++....     ..++. .          ......+...+                     
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-----~~~i~-~----------~~~~~~~~~~~---------------------   86 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-----ALLIH-P----------NEIGSDAANAA---------------------   86 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-----CEEec-H----------HHcchHHHHhh---------------------
Confidence            46789999999999999999887532     12332 0          00111111110                     


Q ss_pred             HhcCceEEEEcCCCC----HHHHHHHhcCCCCCCCCcEEEEEcCCH---------hHHhhCCCcceEecCCCChHHHHHH
Q 038919          246 LRQKKVLLVIDDVAH----VEQLRRLAGKRDWFGPGSRIIITTRDE---------HLLKLHRVEEVFKLEALTYDEAFQL  312 (483)
Q Consensus       246 l~~~~~LlVlDdv~~----~~~~~~l~~~~~~~~~~~~iliTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L  312 (483)
                       .+  -+|++||++.    .+.+-.+...+.  ..|..+|+|++..         .+...+....++++++++.++-.++
T Consensus        87 -~~--~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~i  161 (226)
T PRK09087         87 -AE--GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQV  161 (226)
T ss_pred             -hc--CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHH
Confidence             01  2788899953    333444433322  3467799988742         2333344557899999999999999


Q ss_pred             HHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          313 FCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                      +.+.+....  -...+++..-|++.+.|..-.+..+-.
T Consensus       162 L~~~~~~~~--~~l~~ev~~~La~~~~r~~~~l~~~l~  197 (226)
T PRK09087        162 IFKLFADRQ--LYVDPHVVYYLVSRMERSLFAAQTIVD  197 (226)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHHHhhhhHHHHHHHHH
Confidence            998874432  123346778888888888777765433

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=2.2e-05  Score=77.79  Aligned_cols=179  Identities=16%  Similarity=0.157  Sum_probs=105.1

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc--------cceeEEEEecccccccCCcH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE--------FDGSSFLADVKEKYDKEGSV  213 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--------f~~~~~~~~~~~~~~~~~~~  213 (483)
                      ...++|.+...+.+.+.+..+ .-.+.+.++|++|+|||++|..+++.+...        |...++-.  .. .... . 
T Consensus        16 ~~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l--~~-~~~~-~-   89 (367)
T PRK14970         16 FDDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL--DA-ASNN-S-   89 (367)
T ss_pred             HHhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe--cc-ccCC-C-
Confidence            368899999999999988753 224688999999999999999998876431        11111111  00 0000 0 


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcC-CHhHH
Q 038919          214 ISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTR-DEHLL  290 (483)
Q Consensus       214 ~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR-~~~~~  290 (483)
                      ......+...+...                 -..+++-++++|+++..  ..+..++..+......+.+|+++. ...+.
T Consensus        90 ~~~i~~l~~~~~~~-----------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~  152 (367)
T PRK14970         90 VDDIRNLIDQVRIP-----------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKII  152 (367)
T ss_pred             HHHHHHHHHHHhhc-----------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCC
Confidence            01111111111000                 01234558999999643  445566544433244555555553 32222


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      .. ......+++.+++.++....+...+......  ...+.+..+++.++|.+-.+
T Consensus       153 ~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~--i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        153 PTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIK--FEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHHhcceeEecCCccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhCCCCHHHH
Confidence            21 2234578999999999999988766443321  22467888899999977644

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

Probab=98.51  E-value=1.9e-05  Score=72.74  Aligned_cols=186  Identities=16%  Similarity=0.145  Sum_probs=112.5

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh--cccceeEEEEecccccccCCc--H
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS--HEFDGSSFLADVKEKYDKEGS--V  213 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~f~~~~~~~~~~~~~~~~~~--~  213 (483)
                      .|+....++|-+..+..|.+.+..  ...+....||++|.|||+-|..++..+-  +-|++++.-.+.+.   ..+.  .
T Consensus        31 rPkt~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSd---erGisvv  105 (346)
T KOG0989|consen   31 RPKTFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASD---ERGISVV  105 (346)
T ss_pred             CCCcHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccc---cccccch
Confidence            334447899999999999998875  4578999999999999999999998753  33555554333221   1111  0


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HH
Q 038919          214 ISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LL  290 (483)
Q Consensus       214 ~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~  290 (483)
                      ..-.+. ...+.........           .-....-++|||+++..  +.|..|...+..+...+++++.+..-. +.
T Consensus       106 r~Kik~-fakl~~~~~~~~~-----------~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii  173 (346)
T KOG0989|consen  106 REKIKN-FAKLTVLLKRSDG-----------YPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRII  173 (346)
T ss_pred             hhhhcC-HHHHhhccccccC-----------CCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCC
Confidence            000000 0010000000000           00011248999999864  667777776666667777655444322 11


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .. ......+..++|..++...-++..+-.....  ...+..+.|++.++|--
T Consensus       174 ~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~--~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  174 RPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVD--IDDDALKLIAKISDGDL  224 (346)
T ss_pred             hHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCcH
Confidence            11 1223458899999999998888877544432  33467888999998853

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.49  E-value=2.7e-06  Score=80.00  Aligned_cols=155  Identities=17%  Similarity=0.200  Sum_probs=82.6

Q ss_pred             HhhhchhHHHHHHHHH---hh-------c---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEeccccc
Q 038919          143 KELVGIESRLEKLKFL---MG-------A---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKY  207 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~---L~-------~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~  207 (483)
                      ..++|.+...+.+.+.   ..       .   ..+....+.++|++|+||||+|+.+++.+....  ....++. +..  
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~-~~~--   82 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIE-VER--   82 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEE-ecH--
Confidence            5688887766665542   21       0   122356788999999999999999998754321  1111111 100  


Q ss_pred             ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC----------HHHHHHHhcCCCCCCCC
Q 038919          208 DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH----------VEQLRRLAGKRDWFGPG  277 (483)
Q Consensus       208 ~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~----------~~~~~~l~~~~~~~~~~  277 (483)
                            ..    +.....+.      ........+..   ....+|++|+++.          .+.++.++..+......
T Consensus        83 ------~~----l~~~~~g~------~~~~~~~~~~~---a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~  143 (261)
T TIGR02881        83 ------AD----LVGEYIGH------TAQKTREVIKK---ALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNE  143 (261)
T ss_pred             ------HH----hhhhhccc------hHHHHHHHHHh---ccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCC
Confidence                  11    11111110      00111111211   1235889999964          23556666655443344


Q ss_pred             cEEEEEcCCHhH---Hh---h--CCCcceEecCCCChHHHHHHHHHhhcc
Q 038919          278 SRIIITTRDEHL---LK---L--HRVEEVFKLEALTYDEAFQLFCLKAFE  319 (483)
Q Consensus       278 ~~iliTtR~~~~---~~---~--~~~~~~~~l~~L~~~ea~~L~~~~~~~  319 (483)
                      ..+++++.....   ..   .  ......+.+++++.++-.+++.+.+..
T Consensus       144 ~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~  193 (261)
T TIGR02881       144 FVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKE  193 (261)
T ss_pred             EEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHH
Confidence            455555543221   00   0  112346889999999999999877643

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.

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

Probab=98.49  E-value=2.2e-06  Score=92.25  Aligned_cols=152  Identities=16%  Similarity=0.191  Sum_probs=89.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.+++.+...|...  ...-+.++|++|+|||++|+.+++++...-      ...+|..++..          +
T Consensus       182 ~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~----------l  249 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS----------L  249 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH----------H
Confidence            68999999999999988753  234578999999999999999999874421      22333332111          1


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH-----------HHHHHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV-----------EQLRRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~iliTt  284 (483)
                          ...     .....+.+..+..+.+.+ ...+++|++|+++..           +.-+.+.+.+.  ....++|-+|
T Consensus       250 ----~a~-----~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~--~g~i~~IgaT  318 (731)
T TIGR02639       250 ----LAG-----TKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS--SGKLRCIGST  318 (731)
T ss_pred             ----hhh-----ccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh--CCCeEEEEec
Confidence                000     001122233333333333 346899999999632           22233333332  1233455444


Q ss_pred             CCHhHH-------hhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLL-------KLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+..-       ........+.+++++.++..+++....
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            432210       011123578999999999999998654

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=1.6e-05  Score=85.51  Aligned_cols=191  Identities=16%  Similarity=0.147  Sum_probs=109.6

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ....+||.+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+.-......         ...+. ......+
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~---------~pCg~-C~sC~~~   81 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPTS---------TPCGE-CDSCVAL   81 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC---------CCCcc-cHHHHHH
Confidence            34689999999999999988532 2456889999999999999999987632110000         00000 0000000


Q ss_pred             HHH------HhcccCCCccchhhhHHHHHHH-----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC-
Q 038919          221 ISD------LLKLADNSIRNVYDGINMIGRR-----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD-  286 (483)
Q Consensus       221 l~~------~~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~-  286 (483)
                      ...      +..........+++..+ +.+.     ..++.-++|||+++..  +..+.|+..+......+.+|++|.+ 
T Consensus        82 ~~g~~~~~dv~eidaas~~~Vd~iR~-l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~  160 (824)
T PRK07764         82 APGGPGSLDVTEIDAASHGGVDDARE-LRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEP  160 (824)
T ss_pred             HcCCCCCCcEEEecccccCCHHHHHH-HHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            000      00000000111222211 1111     2345568899999743  5566666666554566666665543 


Q ss_pred             HhHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          287 EHLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       287 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ..+... ......|++.+++.++..+++.+.+......  ...+....|++.++|.+..+
T Consensus       161 ~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~--id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        161 DKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP--VEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            334332 2345679999999999999988765333221  23355678899999988433

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

Probab=98.47  E-value=1.1e-05  Score=73.53  Aligned_cols=261  Identities=21%  Similarity=0.236  Sum_probs=147.7

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHH
Q 038919          139 SEILKELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      |+....|||-++..+.|.=.+..   .....-.+.++|++|.||||||.-+++.+...+..    . -.......+.   
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~----t-sGp~leK~gD---   93 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKI----T-SGPALEKPGD---   93 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEe----c-ccccccChhh---
Confidence            34457899999888887766653   22235679999999999999999999987665321    0 0000011111   


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCC--------CCCcE------
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWF--------GPGSR------  279 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~--------~~~~~------  279 (483)
                       +..++..                      +. ..=++.+|.+...  ..-+-+.+....+        +++++      
T Consensus        94 -laaiLt~----------------------Le-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldL  149 (332)
T COG2255          94 -LAAILTN----------------------LE-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDL  149 (332)
T ss_pred             -HHHHHhc----------------------CC-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccC
Confidence             1111111                      11 1225667877532  1112222222211        33333      


Q ss_pred             -----EEEEcCCHhHHhhC--CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          280 -----IIITTRDEHLLKLH--RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       280 -----iliTtR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                           |=-|||.-.+....  ...-+.+++-.+.+|-.+.+.+.+..-.  .+...+.+.+|++.+.|-|--..-+-+..
T Consensus       150 ppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~--i~i~~~~a~eIA~rSRGTPRIAnRLLrRV  227 (332)
T COG2255         150 PPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILG--IEIDEEAALEIARRSRGTPRIANRLLRRV  227 (332)
T ss_pred             CCeeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhC--CCCChHHHHHHHHhccCCcHHHHHHHHHH
Confidence                 33488854332221  2334678899999999999988773322  22334678899999999997555444433


Q ss_pred             CCCCHHHHHHHHHHhccC--CCc----cHHHHHHHhhcCCcHHHHHHHhhhhcCC--CCCCHHHHHHHHHhCCCChhhhH
Q 038919          353 FGRPVDEWTSTLERLKRE--PEN----EILDILQISFDGLKEAEKEIFLDVACFF--KGEKRDYVSKILDSCGFEPVIGI  424 (483)
Q Consensus       353 ~~~~~~~~~~~l~~l~~~--~~~----~v~~~l~~s~~~L~~~~k~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l  424 (483)
                      +.     +    ......  .+.    .....|..-=.+|+...+..+..+.-.+  .+.-.+.+...+..+....++.+
T Consensus       228 RD-----f----a~V~~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~  298 (332)
T COG2255         228 RD-----F----AQVKGDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVI  298 (332)
T ss_pred             HH-----H----HHHhcCCcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHH
Confidence            21     1    111111  011    1122233333467777777777666655  34567777777655444444444


Q ss_pred             H-HHhhCCceeEecCCeEE
Q 038919          425 G-VLIEKSLLTICESDRLW  442 (483)
Q Consensus       425 ~-~L~~~sLi~~~~~~~~~  442 (483)
                      + -|++.|+|+....|+..
T Consensus       299 EPyLiq~gfi~RTpRGR~a  317 (332)
T COG2255         299 EPYLIQQGFIQRTPRGRIA  317 (332)
T ss_pred             hHHHHHhchhhhCCCccee
Confidence            4 48999999998888753

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=1.5e-05  Score=82.08  Aligned_cols=192  Identities=21%  Similarity=0.145  Sum_probs=107.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..+||-+..++.|.+++..+. -...+.++|++|+||||+|+.++..+.-.....         ....+. ......+..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---------~~pcg~-C~~C~~i~~   84 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVT---------ATPCGV-CSACLEIDS   84 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------CCCCCC-CHHHHHHhc
Confidence            679999999999999888532 245678999999999999999998763211000         000000 000000000


Q ss_pred             ----HHhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHH
Q 038919          223 ----DLLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLL  290 (483)
Q Consensus       223 ----~~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~  290 (483)
                          .+...........++... +.+..     .+++-++|+|+++..  .....|+..+......+.+|++|.++ .+.
T Consensus        85 ~~~~d~~ei~~~~~~~vd~ir~-l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil  163 (527)
T PRK14969         85 GRFVDLIEVDAASNTQVDAMRE-LLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIP  163 (527)
T ss_pred             CCCCceeEeeccccCCHHHHHH-HHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCc
Confidence                000000000111111111 11111     245669999999744  44566665555445566666655443 222


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVL  348 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~l  348 (483)
                      .. ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+- ++..+
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~--~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        164 VTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP--FDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             hhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            11 1223568999999999998887766433221  233567888999999885 44433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=2e-05  Score=81.26  Aligned_cols=197  Identities=15%  Similarity=0.143  Sum_probs=112.6

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|-+...+.|.+++..+. -.+.+.++|+.|+||||+|+.+++.+-......         ....+. ......+.
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~---------~~pCg~-C~sC~~i~   83 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKALNCETAPT---------GEPCNT-CEQCRKVT   83 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhccccCCCC---------CCCCcc-cHHHHHHh
Confidence            4678999998899999887532 256888999999999999999998663211000         000000 00011110


Q ss_pred             HHH----hcccCCCccchhhhHHHHHHH-----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC-HhH
Q 038919          222 SDL----LKLADNSIRNVYDGINMIGRR-----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD-EHL  289 (483)
Q Consensus       222 ~~~----~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~-~~~  289 (483)
                      ...    ..........+++ +..+.+.     ..+++-++|||+++..  +....|+..+........+|++|.+ ..+
T Consensus        84 ~g~hpDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kl  162 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKF  162 (624)
T ss_pred             cCCCCceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhh
Confidence            000    0000000001111 1112222     2345679999999643  5566666665433455666665554 333


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh-HHHHHHHHHh
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP-LALKVLGSFL  352 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~la~~l  352 (483)
                      ... ......+++.+++.++....+...+.....  ....+.++.|++.++|.+ .|+..+...+
T Consensus       163 l~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi--~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        163 PVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV--DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            322 223457899999999999999876644322  123466788999999976 5776665443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=1.6e-05  Score=81.05  Aligned_cols=191  Identities=15%  Similarity=0.140  Sum_probs=110.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc-ccce--eEEEEecccccccCCcHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH-EFDG--SSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~--~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ...+||-+...+.|...+..+. -...+.++|+.|+||||+|+.+++.+-. ....  .|..+             ....
T Consensus        13 fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C-------------~~C~   78 (535)
T PRK08451         13 FDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTC-------------IQCQ   78 (535)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCccc-------------HHHH
Confidence            4689999999999999887542 2457789999999999999999987632 1110  00000             0000


Q ss_pred             HHHHH----HhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          219 QLISD----LLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       219 ~ll~~----~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                      .+...    +...........++..+.+...    ..+++-++|+|+++.  .+....|+..+....+.+++|++|.++.
T Consensus        79 ~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~  158 (535)
T PRK08451         79 SALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPL  158 (535)
T ss_pred             HHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChh
Confidence            00000    0000000001122222222110    013456899999964  4556666655554456777777776542


Q ss_pred             -HHh-hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          289 -LLK-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       289 -~~~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                       +.. .......+++.+++.++..+.+...+......  ...+.+..|++.++|.+.-+..+
T Consensus       159 kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~--i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        159 KLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS--YEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             hCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHH
Confidence             211 12234678999999999999998766443322  23467788999999998555443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=7.3e-05  Score=76.10  Aligned_cols=191  Identities=17%  Similarity=0.126  Sum_probs=108.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-----cceeEEEEecccccc--cCCcHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-----FDGSSFLADVKEKYD--KEGSVI  214 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~--~~~~~~  214 (483)
                      ...++|-+...+.|.+++..+. -...+.++|+.|+||||+|+.++..+...     .++... .++.....  ..++  
T Consensus        15 f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c-~nc~~i~~g~~~d~--   90 (486)
T PRK14953         15 FKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC-ENCVEIDKGSFPDL--   90 (486)
T ss_pred             HHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc-HHHHHHhcCCCCcE--
Confidence            3678999999999999998542 24567899999999999999999875421     011100 00000000  0000  


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC-
Q 038919          215 SLQKQLISDLLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD-  286 (483)
Q Consensus       215 ~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~-  286 (483)
                                ...........++ +..+.+.+     .+++-++|+|+++..  +....|+..+....+...+|++|.+ 
T Consensus        91 ----------~eidaas~~gvd~-ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~  159 (486)
T PRK14953         91 ----------IEIDAASNRGIDD-IRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEY  159 (486)
T ss_pred             ----------EEEeCccCCCHHH-HHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCH
Confidence                      0000000011111 11222222     245669999999743  4455665555443445555555433 


Q ss_pred             HhHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          287 EHLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       287 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ..+... ......+.+.+++.++....+...+-.....  ...+.+..+++.++|.+..+..+.
T Consensus       160 ~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~--id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        160 DKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE--YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             HHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            333222 2234578999999999999988866433221  233567788999999886554443

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.41  E-value=5.1e-06  Score=84.08  Aligned_cols=160  Identities=16%  Similarity=0.256  Sum_probs=89.9

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc-----eeEEEEecccc
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD-----GSSFLADVKEK  206 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~  206 (483)
                      ..+.|.+..++++.+.+..           +-..++-+.|+|++|+|||++|+.+++.+...+.     ...|+ ++...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl-~v~~~  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFL-NIKGP  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEE-eccch
Confidence            5678899999888876531           1123456899999999999999999998765421     12222 22210


Q ss_pred             cccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH-HhcCceEEEEcCCCCHH--------------HHHHHhcCC
Q 038919          207 YDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR-LRQKKVLLVIDDVAHVE--------------QLRRLAGKR  271 (483)
Q Consensus       207 ~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~--------------~~~~l~~~~  271 (483)
                              .    ++....+.   ............+.. ..+++++|+||+++...              .+..|+..+
T Consensus       261 --------e----Ll~kyvGe---te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~L  325 (512)
T TIGR03689       261 --------E----LLNKYVGE---TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSEL  325 (512)
T ss_pred             --------h----hcccccch---HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHh
Confidence                    0    11110000   000111111112221 23579999999996431              123344333


Q ss_pred             CCC--CCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhc
Q 038919          272 DWF--GPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAF  318 (483)
Q Consensus       272 ~~~--~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~  318 (483)
                      ...  ..+..||.||..+..+.     ....+..+++++.+.++..++|..+..
T Consensus       326 Dgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       326 DGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             cccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            321  13445555665443221     123455689999999999999988863

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.39  E-value=6.6e-06  Score=79.81  Aligned_cols=152  Identities=16%  Similarity=0.205  Sum_probs=87.3

Q ss_pred             chHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHH
Q 038919          137 TESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       137 ~~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +.|.-...++|.+...+.+..++..+ .-..++.++|++|+|||++|..+++.....    +...+...    ... ..+
T Consensus        15 yrP~~~~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~----~~~i~~~~----~~~-~~i   84 (316)
T PHA02544         15 YRPSTIDECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAE----VLFVNGSD----CRI-DFV   84 (316)
T ss_pred             cCCCcHHHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCcc----ceEeccCc----ccH-HHH
Confidence            34455578999999999999988743 235677789999999999999999876322    12222211    111 111


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH---HHHHHHhcCCCCCCCCcEEEEEcCCHhHH-h-
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV---EQLRRLAGKRDWFGPGSRIIITTRDEHLL-K-  291 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~~l~~~~~~~~~~~~iliTtR~~~~~-~-  291 (483)
                      . ..+.......                .+.+.+-++|+|+++..   +....+...+.....++++|+||...... . 
T Consensus        85 ~-~~l~~~~~~~----------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~  147 (316)
T PHA02544         85 R-NRLTRFASTV----------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEP  147 (316)
T ss_pred             H-HHHHHHHHhh----------------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHH
Confidence            1 1111111000                01134568999999744   22222322223335677888888754321 1 


Q ss_pred             hCCCcceEecCCCChHHHHHHHHH
Q 038919          292 LHRVEEVFKLEALTYDEAFQLFCL  315 (483)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~L~~~  315 (483)
                      .......+.++..+.++..+++..
T Consensus       148 l~sR~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        148 LRSRCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             HHhhceEEEeCCCCHHHHHHHHHH
Confidence            112234677888888888776654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.38  E-value=1.5e-05  Score=80.45  Aligned_cols=159  Identities=18%  Similarity=0.185  Sum_probs=94.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccce-eEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDG-SSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|++|+|||.|+..+++.+...++. .+.+.+.          ..+...+...+..      ...    ..+.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~----------~~f~~~~~~~~~~------~~~----~~f~~  189 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS----------EKFLNDLVDSMKE------GKL----NEFRE  189 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHHHHHHHhc------ccH----HHHHH
Confidence            4569999999999999999999987765432 3333311          2333333333211      111    12333


Q ss_pred             HHhcCceEEEEcCCCCH-------HHHHHHhcCCCCCCCCcEEEEEcC-CHhHHh--------hCCCcceEecCCCChHH
Q 038919          245 RLRQKKVLLVIDDVAHV-------EQLRRLAGKRDWFGPGSRIIITTR-DEHLLK--------LHRVEEVFKLEALTYDE  308 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~-------~~~~~l~~~~~~~~~~~~iliTtR-~~~~~~--------~~~~~~~~~l~~L~~~e  308 (483)
                      ..+...-+|++||++..       +.+-.++..+.  ..+..||+||. .+.-+.        ......++.+++.+.+.
T Consensus       190 ~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~--~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~  267 (440)
T PRK14088        190 KYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELH--DSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEET  267 (440)
T ss_pred             HHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHH--HcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHH
Confidence            34445668999999632       12222222221  23456888874 432221        12334578899999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      -.+++.+.+.....  ...++++.-|++.+.|+--.|.-+
T Consensus       268 r~~IL~~~~~~~~~--~l~~ev~~~Ia~~~~~~~R~L~g~  305 (440)
T PRK14088        268 RKKIARKMLEIEHG--ELPEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_pred             HHHHHHHHHHhcCC--CCCHHHHHHHHhccccCHHHHHHH
Confidence            99999888743222  123467888899988887666543

>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=98.38  E-value=0.00033  Score=68.43  Aligned_cols=274  Identities=18%  Similarity=0.185  Sum_probs=142.0

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHH-HHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHH--
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLA-RVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDL--  224 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~--  224 (483)
                      |.+.+++|..||....+  ..|.|.||-|+||+.|+ .++.+.    .+. +.+.++.+.....+- ..+...+..++  
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 RKEAIEQLKSWLNENPN--TFIVVQGPRGSGKRELVMDHVLKD----RKN-VLVIDCDQIVKARGD-AAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhcCCC--eEEEEECCCCCCccHHHHHHHHhC----CCC-EEEEEChHhhhccCh-HHHHHHHHHhcCC
Confidence            56778999999986544  68999999999999999 666553    222 333334333221211 22222222111  


Q ss_pred             ---------------------hcccCCCccchhhhHH--------HHHHH-------------------Hh---cCceEE
Q 038919          225 ---------------------LKLADNSIRNVYDGIN--------MIGRR-------------------LR---QKKVLL  253 (483)
Q Consensus       225 ---------------------~~~~~~~~~~~~~~~~--------~l~~~-------------------l~---~~~~Ll  253 (483)
                                           .+....-..+.+..+.        .++..                   +.   ..+-+|
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                                 1111110111111111        11110                   00   125689


Q ss_pred             EEcCCCCH-----------HHHHHHhcCCCCCCCCcEEEEEcCCHhHHh----hC--CCcceEecCCCChHHHHHHHHHh
Q 038919          254 VIDDVAHV-----------EQLRRLAGKRDWFGPGSRIIITTRDEHLLK----LH--RVEEVFKLEALTYDEAFQLFCLK  316 (483)
Q Consensus       254 VlDdv~~~-----------~~~~~l~~~~~~~~~~~~iliTtR~~~~~~----~~--~~~~~~~l~~L~~~ea~~L~~~~  316 (483)
                      |+||+...           .+|...+-.    .+--+||++|-+.....    .+  ...+.+.|.-.+.+.|.++...+
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            99999321           223332222    44568888887653322    22  24467889999999999999988


Q ss_pred             hccCCCC------------------CchHHHHHHHHHHHhCCChHHHHHHHHHhCCC-CHHHHHHHHHHhccCCCccHHH
Q 038919          317 AFETQKP------------------REEYVHLSQLVVNYAGGLPLALKVLGSFLFGR-PVDEWTSTLERLKREPENEILD  377 (483)
Q Consensus       317 ~~~~~~~------------------~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~-~~~~~~~~l~~l~~~~~~~v~~  377 (483)
                      +......                  .....+-....++.+||--.=|+.+++.++.. ++.   .+++.+   ...++..
T Consensus       229 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~---~Av~~i---I~qsa~e  302 (431)
T PF10443_consen  229 LDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPE---EAVEEI---ISQSASE  302 (431)
T ss_pred             hcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHH---HHHHHH---HHHHHHH
Confidence            8543110                  01244556777888999999999999888653 222   222221   1112222


Q ss_pred             HHHHhhc-------CCcHHHHHHHhhhhcCCCCCCHHHHHHHHHhCCC--ChhhhHHHHhhCCceeEec-CCe
Q 038919          378 ILQISFD-------GLKEAEKEIFLDVACFFKGEKRDYVSKILDSCGF--EPVIGIGVLIEKSLLTICE-SDR  440 (483)
Q Consensus       378 ~l~~s~~-------~L~~~~k~~l~~la~f~~~~~~~~l~~~~~~~~~--~~~~~l~~L~~~sLi~~~~-~~~  440 (483)
                      +.+.-+.       .++-...+.+..+-.+.......+=.-++ .+.|  ..+.+|+.|.+..||++.. +|+
T Consensus       303 I~k~fl~~~~~~~~~~~Wt~~QaW~LIk~Ls~~~~v~Y~~ll~-~~lFk~~~E~~L~aLe~aeLItv~~~~G~  374 (431)
T PF10443_consen  303 IRKMFLLDDSDDAKSLKWTREQAWYLIKLLSKNDEVPYNELLL-SPLFKGNDETALRALEQAELITVTTDNGR  374 (431)
T ss_pred             HHHHHhcCCCCcccCCCCCHHHHHHHHHHhccCCcCcHHHHHc-ccccCCCChHHHHHHHHCCcEEEEecCCc
Confidence            2222222       11112233333333333222222222222 1122  2456899999999999754 444

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 [].

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.37  E-value=1.3e-05  Score=87.26  Aligned_cols=151  Identities=19%  Similarity=0.194  Sum_probs=87.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-c-----ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-F-----DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f-----~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.+++.+.+.|...  ..+-+.++|++|+|||++|..++.++... -     ...+|..+...           
T Consensus       179 ~~~igr~~ei~~~~~~L~r~--~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~-----------  245 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRR--TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGL-----------  245 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccc--ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHH-----------
Confidence            57899999999999999753  23456799999999999999999987532 1     12333332211           


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCHH---------HHHH-HhcCCCCCCCCcEEEEEcC
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHVE---------QLRR-LAGKRDWFGPGSRIIITTR  285 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~---------~~~~-l~~~~~~~~~~~~iliTtR  285 (483)
                             +... .....+.++.+..+.+.+ ..++++|++|+++..-         .... |.+.+.  ....++|.+|.
T Consensus       246 -------l~ag-~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt  315 (821)
T CHL00095        246 -------LLAG-TKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATT  315 (821)
T ss_pred             -------Hhcc-CCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCC
Confidence                   1110 011122233333333322 3568999999995321         1122 222222  22345565555


Q ss_pred             CHhHHh-------hCCCcceEecCCCChHHHHHHHHHh
Q 038919          286 DEHLLK-------LHRVEEVFKLEALTYDEAFQLFCLK  316 (483)
Q Consensus       286 ~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~  316 (483)
                      .+..-.       .......+.++..+.++...++...
T Consensus       316 ~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        316 LDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            443211       1123356789999999988887643

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.37  E-value=1.7e-05  Score=79.62  Aligned_cols=160  Identities=17%  Similarity=0.166  Sum_probs=92.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccc-eeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFD-GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|++|+|||.|+.++++.+....+ ..+.+.+.          ..+...+...+...      ..    ..+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~----------~~~~~~~~~~~~~~------~~----~~~~~  195 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS----------EKFTNDFVNALRNN------KM----EEFKE  195 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH----------HHHHHHHHHHHHcC------CH----HHHHH
Confidence            456899999999999999999998876543 22222211          22233333332211      11    22333


Q ss_pred             HHhcCceEEEEcCCCCH----HHHHHHhcCCCC-CCCCcEEEEEcCCH-hHH--------hhCCCcceEecCCCChHHHH
Q 038919          245 RLRQKKVLLVIDDVAHV----EQLRRLAGKRDW-FGPGSRIIITTRDE-HLL--------KLHRVEEVFKLEALTYDEAF  310 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~----~~~~~l~~~~~~-~~~~~~iliTtR~~-~~~--------~~~~~~~~~~l~~L~~~ea~  310 (483)
                      .+++ .-+|+|||++..    ...+.++..+.. ...+..+|+|+... ..+        ..+.....+.+++.+.++-.
T Consensus       196 ~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~  274 (405)
T TIGR00362       196 KYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRL  274 (405)
T ss_pred             HHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHH
Confidence            3333 348899999632    111222221110 02355677777642 211        12223346899999999999


Q ss_pred             HHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          311 QLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       311 ~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      +++...+.....  ...++....|++.+.|+.-.|.-+
T Consensus       275 ~il~~~~~~~~~--~l~~e~l~~ia~~~~~~~r~l~~~  310 (405)
T TIGR00362       275 AILQKKAEEEGL--ELPDEVLEFIAKNIRSNVRELEGA  310 (405)
T ss_pred             HHHHHHHHHcCC--CCCHHHHHHHHHhcCCCHHHHHHH
Confidence            999988754322  223467888888999888765543

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).

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.34  E-value=1.3e-05  Score=81.62  Aligned_cols=158  Identities=15%  Similarity=0.168  Sum_probs=93.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccce-eEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDG-SSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|++|+|||+|+..+++.+...++. .+.+.+.          ..+...+...+..      ...    ..+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~----------~~~~~~~~~~~~~------~~~----~~~~~  207 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS----------EKFTNDFVNALRN------NTM----EEFKE  207 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHHHHHHHHc------CcH----HHHHH
Confidence            4568999999999999999999998776533 2222211          2222333333211      011    22333


Q ss_pred             HHhcCceEEEEcCCCCH----HHHHHHhc---CCCCCCCCcEEEEEcCCHh---------HHhhCCCcceEecCCCChHH
Q 038919          245 RLRQKKVLLVIDDVAHV----EQLRRLAG---KRDWFGPGSRIIITTRDEH---------LLKLHRVEEVFKLEALTYDE  308 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~----~~~~~l~~---~~~~~~~~~~iliTtR~~~---------~~~~~~~~~~~~l~~L~~~e  308 (483)
                      .++ +.-+|+|||++..    ...+.++.   .+.  ..+..+|+||....         +...+....++++++++.++
T Consensus       208 ~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~--~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~  284 (450)
T PRK00149        208 KYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALH--EAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLET  284 (450)
T ss_pred             HHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHH--HCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHH
Confidence            444 3458999999532    11122222   211  23456777776431         12223344578999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      -.+++...+....  ..-.+++..-|++.+.|..-.|.-+
T Consensus       285 r~~il~~~~~~~~--~~l~~e~l~~ia~~~~~~~R~l~~~  322 (450)
T PRK00149        285 RIAILKKKAEEEG--IDLPDEVLEFIAKNITSNVRELEGA  322 (450)
T ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHcCcCCCHHHHHHH
Confidence            9999998875422  1233467888999999988765433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=4.6e-05  Score=79.92  Aligned_cols=190  Identities=14%  Similarity=0.160  Sum_probs=107.7

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..++|-+..++.|..++..+. -...+.++|+.|+||||+|+.++..+-.......+        .   . .........
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~--------~---p-C~~C~~~~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLL--------E---P-CQECIENVN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCC--------C---c-hhHHHHhhc
Confidence            689999999999999987542 25677899999999999999999865321110000        0   0 000000000


Q ss_pred             H---HhcccCCCccchhhhHHHHHHHHh-----cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEc-CCHhHHh
Q 038919          223 D---LLKLADNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITT-RDEHLLK  291 (483)
Q Consensus       223 ~---~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTt-R~~~~~~  291 (483)
                      .   +...........++ +..+.+.+.     +++-++|+|+++.  ......|+..+......+.+|++| ....+..
T Consensus        85 ~~~Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~  163 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPL  163 (725)
T ss_pred             CCCcEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhH
Confidence            0   00000000011111 122222222     4566899999964  355666666555434555555444 4444432


Q ss_pred             h-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHH
Q 038919          292 L-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVL  348 (483)
Q Consensus       292 ~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~l  348 (483)
                      . ......+++.+++.++..+.+...+......  ...+.+..++..++|.+. |+..+
T Consensus       164 TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~--id~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        164 TILSRVQRFNFRRISEDEIVSRLEFILEKENIS--YEKNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             HHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2 3344689999999999999888765332211  223557789999999775 44433

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=0.00011  Score=76.91  Aligned_cols=192  Identities=17%  Similarity=0.126  Sum_probs=107.8

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|-+...+.|...+..+. -...+.++|+.|+||||+|..++..+.-.....-     ...+.   . ......+.
T Consensus        16 f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~-----~~~Cg---~-C~sC~~~~   85 (614)
T PRK14971         16 FESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTAD-----GEACN---E-CESCVAFN   85 (614)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-----CCCCC---c-chHHHHHh
Confidence            3689999999999999987532 2467899999999999999999986631110000     00000   0 00000000


Q ss_pred             HH----HhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEc-CCHhHH
Q 038919          222 SD----LLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITT-RDEHLL  290 (483)
Q Consensus       222 ~~----~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTt-R~~~~~  290 (483)
                      ..    +...........++....+...    ..+.+=++|+|+++..  .....|+..+.....++.+|++| ....+.
T Consensus        86 ~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl  165 (614)
T PRK14971         86 EQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKIL  165 (614)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhch
Confidence            00    0000000011112222222111    1134458899999643  45666666555444566665544 444444


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      .. ......+++.+++.++....+...+......  ...+.+..|++.++|..--+
T Consensus       166 ~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~--i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        166 PTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT--AEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             HHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            32 3345679999999999999998766443322  22356788999999977544

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=8.4e-05  Score=75.15  Aligned_cols=190  Identities=17%  Similarity=0.163  Sum_probs=106.8

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccce----eEEEE-ecccccccCCcHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG----SSFLA-DVKEKYDKEGSVISL  216 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~----~~~~~-~~~~~~~~~~~~~~l  216 (483)
                      ...++|.+..++.|.+++..+. -...+.++|++|+||||+|+.+++.+...-..    .|-.+ ++.........    
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~----   90 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSL----   90 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCC----
Confidence            3689999999999999887432 24678899999999999999999876322000    00000 00000000000    


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHH-----HhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC-Hh
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRR-----LRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD-EH  288 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~-~~  288 (483)
                            .+....+......++.. .+.+.     ..+.+-++|+|+++..  +....|+..+....+.+.+|++|.+ ..
T Consensus        91 ------d~~~i~g~~~~gid~ir-~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~k  163 (451)
T PRK06305         91 ------DVLEIDGASHRGIEDIR-QINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHK  163 (451)
T ss_pred             ------ceEEeeccccCCHHHHH-HHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHh
Confidence                  00000000001111111 11111     1255678999999643  4455565555543456666666543 32


Q ss_pred             HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          289 LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       289 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      +... ......+++.+++.++....+...+.....  ....+.+..++..++|.+.-+
T Consensus       164 l~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~--~i~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        164 IPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGI--ETSREALLPIARAAQGSLRDA  219 (451)
T ss_pred             cchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            3222 223457899999999999988876543221  123466888999999987533

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.33  E-value=0.00015  Score=74.71  Aligned_cols=157  Identities=14%  Similarity=0.186  Sum_probs=93.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc-eeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD-GSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ..+.|+|..|+|||.|+.++++.....+. ..+.+...          ..+...+...+...      .    ...+++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita----------eef~~el~~al~~~------~----~~~f~~~  374 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS----------EEFTNEFINSIRDG------K----GDSFRRR  374 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH----------HHHHHHHHHHHHhc------c----HHHHHHH
Confidence            45899999999999999999998765432 22332211          23333333332110      1    1223333


Q ss_pred             HhcCceEEEEcCCCCH-------HHHHHHhcCCCCCCCCcEEEEEcCCH---------hHHhhCCCcceEecCCCChHHH
Q 038919          246 LRQKKVLLVIDDVAHV-------EQLRRLAGKRDWFGPGSRIIITTRDE---------HLLKLHRVEEVFKLEALTYDEA  309 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~-------~~~~~l~~~~~~~~~~~~iliTtR~~---------~~~~~~~~~~~~~l~~L~~~ea  309 (483)
                      +++ .-+|||||++..       +.+-.++..+.  ..+..|||||...         .+...+...-++.|.+.+.+.-
T Consensus       375 y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~--e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR  451 (617)
T PRK14086        375 YRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLH--NANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETR  451 (617)
T ss_pred             hhc-CCEEEEehhccccCCHHHHHHHHHHHHHHH--hcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHH
Confidence            333 347889999532       22223332222  3456788888752         2223334556789999999999


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          310 FQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       310 ~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .+++.+++.....  ....+++.-|++.+.++.-.|.-+
T Consensus       452 ~aIL~kka~~r~l--~l~~eVi~yLa~r~~rnvR~Lega  488 (617)
T PRK14086        452 IAILRKKAVQEQL--NAPPEVLEFIASRISRNIRELEGA  488 (617)
T ss_pred             HHHHHHHHHhcCC--CCCHHHHHHHHHhccCCHHHHHHH
Confidence            9999988754322  233467777888888776655543

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

Probab=98.31  E-value=3e-05  Score=76.86  Aligned_cols=173  Identities=16%  Similarity=0.187  Sum_probs=98.2

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+...+++.+.+..           +-..++-+.++|++|+|||+||+.+++.....|   +.+. .        
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            5788999888888875531           112356799999999999999999998765432   1111 0        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC-
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF-  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~-  274 (483)
                        ..+    .....+.      ........+.......+.+|+||+++..                ..+..++..+..+ 
T Consensus       213 --s~l----~~k~~ge------~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~  280 (398)
T PTZ00454        213 --SEF----VQKYLGE------GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFD  280 (398)
T ss_pred             --HHH----HHHhcch------hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccC
Confidence              111    1111110      0111112222333467899999998632                1122333332211 


Q ss_pred             -CCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 -GPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 -~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       ..+..||+||.....+.     ....+..+.++..+.++-.++|..+........+   -....+++.+.|..
T Consensus       281 ~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~d---vd~~~la~~t~g~s  351 (398)
T PTZ00454        281 QTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEE---VDLEDFVSRPEKIS  351 (398)
T ss_pred             CCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcc---cCHHHHHHHcCCCC
Confidence             24567788887554322     1234567899999999988888876543222111   11445666666653

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=4.8e-05  Score=79.63  Aligned_cols=197  Identities=18%  Similarity=0.129  Sum_probs=110.0

Q ss_pred             HHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          140 EILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       140 ~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      .....++|.+...+.|..++..+. -.+.+.++|+.|+||||+|+.+++.+--......-       ....+. ......
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~-------~~~Cg~-C~~C~~   83 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPT-------PEPCGK-CELCRA   83 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCC-------CCCCcc-cHHHHH
Confidence            334689999999999999988542 24578899999999999999999876432110000       000000 111111


Q ss_pred             HHHHHh----cccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-
Q 038919          220 LISDLL----KLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-  287 (483)
Q Consensus       220 ll~~~~----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-  287 (483)
                      +.....    ..........+...+.+ +.+     .+++-++|+|+++..  +....|+..+..-...+.+|++|.+. 
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~IReii-~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~  162 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNIRELI-ERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQ  162 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHHHHHH-HHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChh
Confidence            111000    00000011111111111 111     244568999999743  55666666555434455555555443 


Q ss_pred             hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          288 HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       288 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .+... ......+++.+++.++....+...+......  ...+.+..+++.++|.+..+..+
T Consensus       163 ~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~--is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        163 RVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE--IEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            33322 2234578889999999888887766432211  22356788999999988655443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.31  E-value=4.3e-05  Score=79.03  Aligned_cols=187  Identities=17%  Similarity=0.128  Sum_probs=110.9

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-----cceeEEEEecccccccCCcHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-----FDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ...++|-+..++.|..++..+. -.+.+.++|+.|+||||+|+.+++.+-..     .++...               ..
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C---------------~~   78 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGEC---------------SS   78 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccc---------------hH
Confidence            3689999999999999987532 35678999999999999999999876421     111000               00


Q ss_pred             HHHHHHH----HhcccCCCccchhhhHHHH---HH-HHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC
Q 038919          217 QKQLISD----LLKLADNSIRNVYDGINMI---GR-RLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD  286 (483)
Q Consensus       217 ~~~ll~~----~~~~~~~~~~~~~~~~~~l---~~-~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~  286 (483)
                      ...+...    +...........++.....   .. -..+++-++|+|+++..  .....|+..+....+.+.+|++|.+
T Consensus        79 C~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte  158 (563)
T PRK06647         79 CKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTE  158 (563)
T ss_pred             HHHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCC
Confidence            0010000    0000000001112211111   11 11345668999999643  5567777666654566666666654


Q ss_pred             H-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          287 E-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       287 ~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      . .+... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+..+.
T Consensus       159 ~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~--id~eAl~lLa~~s~GdlR~al  218 (563)
T PRK06647        159 VHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIK--YEDEALKWIAYKSTGSVRDAY  218 (563)
T ss_pred             hHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            3 33222 2234568999999999999998776443322  234667889999999885443

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

Probab=98.30  E-value=2.9e-05  Score=75.46  Aligned_cols=201  Identities=20%  Similarity=0.226  Sum_probs=114.0

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccce-eEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG-SSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..++||+.++..+.+++..  ..+..+.+-|.|-+|.|||.+...++.+....... .....|.....    ....++..
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~----~~~aiF~k  225 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLT----EASAIFKK  225 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeecccc----chHHHHHH
Confidence            5789999999999998875  33456789999999999999999999887766554 21222222212    22566666


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhc--CceEEEEcCCCCHHHH--HHHhcCCCCC-CCCcEEEEEcCC------Hh
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQ--KKVLLVIDDVAHVEQL--RRLAGKRDWF-GPGSRIIITTRD------EH  288 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~~--~~l~~~~~~~-~~~~~iliTtR~------~~  288 (483)
                      +...+.......... .+....+......  ..+|+|+|..|....-  ..+...+.|- -+++++|+.---      +.
T Consensus       226 I~~~~~q~~~s~~~~-~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTG-MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHHhcCCchh-HHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            666654333322222 3333344444433  3689999999755321  1111111111 345555542211      11


Q ss_pred             HHhhCC-----CcceEecCCCChHHHHHHHHHhhccCCCCC---chHHHHHHHHHHHhCCChHHHHHH
Q 038919          289 LLKLHR-----VEEVFKLEALTYDEAFQLFCLKAFETQKPR---EEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       289 ~~~~~~-----~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~---~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .+....     ....+..+|.+.++-.++|..+........   ...+-.+++++...|.+--||.+.
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~  372 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVC  372 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHH
Confidence            222221     235678899999999999998874433221   122233444444444444555444

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.30  E-value=2.5e-05  Score=85.12  Aligned_cols=152  Identities=11%  Similarity=0.081  Sum_probs=86.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.++..+...|...  ....+.++|++|+|||+||..++.++....      ...++..++.....        
T Consensus       178 ~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~a--------  247 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA--------  247 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhh--------
Confidence            67999999999999988753  334577999999999999999999875421      12333322221100        


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH--hcCceEEEEcCCCCHH----------HHHHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL--RQKKVLLVIDDVAHVE----------QLRRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~----------~~~~l~~~~~~~~~~~~iliTt  284 (483)
                               +  ..........+..+...+  .+.+++|++|+++...          .-+-|.+.+.  ....++|-+|
T Consensus       248 ---------g--~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~--~g~l~~IgaT  314 (857)
T PRK10865        248 ---------G--AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGAT  314 (857)
T ss_pred             ---------c--cchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhh--cCCCeEEEcC
Confidence                     0  000111222222222222  2578999999996442          2223333332  2234555555


Q ss_pred             CCHhHH-------hhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLL-------KLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+..-       ......+.+.+...+.++...+++...
T Consensus       315 t~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        315 TLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             CCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            443321       011123356677778899988886554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.30  E-value=2.1e-05  Score=86.11  Aligned_cols=152  Identities=13%  Similarity=0.133  Sum_probs=87.7

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.++..+...|...  ....+.++|++|+|||++|..+++++...+      ...+|..++..          +
T Consensus       173 ~~~igr~~ei~~~~~~l~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~----------l  240 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA----------L  240 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH----------H
Confidence            57999999999999988754  234566899999999999999999875431      12233322111          0


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH----------HHHHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE----------QLRRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~----------~~~~l~~~~~~~~~~~~iliTt  284 (483)
                          +.   +  .....+....+..+...+.  +++++|++|+++...          ..+.|.+.+.  ....++|.+|
T Consensus       241 ----~a---~--~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaT  309 (852)
T TIGR03346       241 ----IA---G--AKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGAT  309 (852)
T ss_pred             ----hh---c--chhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeC
Confidence                00   0  0001122222233333332  468999999996432          2222333322  2234455555


Q ss_pred             CCHhHHh-------hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLLK-------LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+..-.       .......+.++..+.++...++....
T Consensus       310 t~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       310 TLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             cHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            4333211       11233567899999999999987653

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.29  E-value=5.3e-05  Score=73.14  Aligned_cols=93  Identities=14%  Similarity=0.105  Sum_probs=61.0

Q ss_pred             ceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCc
Q 038919          250 KVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPRE  325 (483)
Q Consensus       250 ~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~  325 (483)
                      +-++|+|+++.  .+....|+..+..-.+++.+|++|.+.. +++. ......+.+.+++.+++.+.+......  .   
T Consensus       107 ~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~--~---  181 (328)
T PRK05707        107 RKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE--S---  181 (328)
T ss_pred             CeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc--C---
Confidence            33557799974  4566666665554456777777777653 3322 234467999999999999999765411  1   


Q ss_pred             hHHHHHHHHHHHhCCChHHHHHH
Q 038919          326 EYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       326 ~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                       ..+.+..++..++|.|+....+
T Consensus       182 -~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        182 -DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             -ChHHHHHHHHHcCCCHHHHHHH
Confidence             1233566788999999755444

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

Probab=98.28  E-value=1.4e-05  Score=79.85  Aligned_cols=173  Identities=16%  Similarity=0.182  Sum_probs=97.8

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+.+++++.+.+..           +-....-+.|+|++|+|||++|+.+++.....|-   .+. .        
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            5678999999998886642           1123456889999999999999999997765431   111 0        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH----------------HHHHHhcCCCCC-
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE----------------QLRRLAGKRDWF-  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~~-  274 (483)
                        ..+..    ...+.      ........+.....+.+.+|+||+++...                .+..++..+..+ 
T Consensus       251 --seL~~----k~~Ge------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~  318 (438)
T PTZ00361        251 --SELIQ----KYLGD------GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFD  318 (438)
T ss_pred             --chhhh----hhcch------HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhc
Confidence              01111    11110      00111122222334678899999984321                122233222211 


Q ss_pred             -CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 -GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 -~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       ..+..||.||.....+..     ......+.++..+.++..++|..+.........   -....++..+.|.-
T Consensus       319 ~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~d---vdl~~la~~t~g~s  389 (438)
T PTZ00361        319 SRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAED---VDLEEFIMAKDELS  389 (438)
T ss_pred             ccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcC---cCHHHHHHhcCCCC
Confidence             235678888875543322     124567899999999999999877644322111   11344555555543

>PRK06620 hypothetical protein; Validated

Probab=98.26  E-value=2.2e-05  Score=71.09  Aligned_cols=136  Identities=13%  Similarity=0.072  Sum_probs=81.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      +.+.|+|++|+|||+|++.+++....     .+...           .....                         ...
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~~-----------~~~~~-------------------------~~~   83 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIKD-----------IFFNE-------------------------EIL   83 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-----EEcch-----------hhhch-------------------------hHH
Confidence            67999999999999999987775421     12110           00000                         001


Q ss_pred             hcCceEEEEcCCCCHH--HHHHHhcCCCCCCCCcEEEEEcCCHhH-------HhhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          247 RQKKVLLVIDDVAHVE--QLRRLAGKRDWFGPGSRIIITTRDEHL-------LKLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~iliTtR~~~~-------~~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      + ..-+|++||++..+  .+-.+...+.  ..|..+|+|++.+..       ...+...-++++++++.++-..++.+.+
T Consensus        84 ~-~~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~  160 (214)
T PRK06620         84 E-KYNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHF  160 (214)
T ss_pred             h-cCCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHH
Confidence            1 23478899997543  2333332222  346688998874422       2223344579999999999888887776


Q ss_pred             ccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          318 FETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       318 ~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      ....  -...+++.+-|++.+.|.--.+.-+
T Consensus       161 ~~~~--l~l~~ev~~~L~~~~~~d~r~l~~~  189 (214)
T PRK06620        161 SISS--VTISRQIIDFLLVNLPREYSKIIEI  189 (214)
T ss_pred             HHcC--CCCCHHHHHHHHHHccCCHHHHHHH
Confidence            4221  1123466777888887776555443

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.25  E-value=0.00041  Score=66.69  Aligned_cols=194  Identities=14%  Similarity=0.057  Sum_probs=108.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc---------------cceeEEEEeccccc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE---------------FDGSSFLADVKEKY  207 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------f~~~~~~~~~~~~~  207 (483)
                      ..++|-+...+.+.+.+..+. -.+...++|+.|+||+++|..+++.+-..               ++...|+...... 
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~-   81 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH-   81 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc-
Confidence            468999999999999887542 25789999999999999999999875321               2222333211000 


Q ss_pred             ccCCcHHHHHHHHHHHHh-cccCCCccchhhhHHHHHHHHh-----cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcE
Q 038919          208 DKEGSVISLQKQLISDLL-KLADNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSR  279 (483)
Q Consensus       208 ~~~~~~~~l~~~ll~~~~-~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~  279 (483)
                      ..... .   ........ .......-.+++ +..+.+.+.     +.+-++|+|+++..  .....|+..+..-+ .+.
T Consensus        82 ~g~~~-~---~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         82 QGKLI-T---ASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             ccccc-c---hhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence            00000 0   00000000 000000001111 222333332     45668999999643  44555555444334 445


Q ss_pred             EEEEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          280 IIITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       280 iliTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      +|++|.+. .+++. ......+++.+++.++..+.+........  .   ......++..++|.|.....+.
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~--~---~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI--L---NINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc--c---hhHHHHHHHHcCCCHHHHHHHH
Confidence            55554443 33332 23456899999999999999987642111  1   1113578899999997665443

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

Probab=98.24  E-value=0.00015  Score=65.44  Aligned_cols=179  Identities=20%  Similarity=0.245  Sum_probs=101.2

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ++.+++.++|.-|+|||.+.+.....+...--..+.+.      .+.-....+...+...+..   ....+.......+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~------~~~~s~~~~~~ai~~~l~~---~p~~~~~~~~e~~~  119 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVID------KPTLSDATLLEAIVADLES---QPKVNVNAVLEQID  119 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEec------CcchhHHHHHHHHHHHhcc---CccchhHHHHHHHH
Confidence            34579999999999999999955554432211222221      1111114444445545433   23333333333333


Q ss_pred             HHH-----hcCc-eEEEEcCCCCH-----HHHHHHhcCCCCCCCCcEEEEEcCCH-------hHHhh-CCCcce-EecCC
Q 038919          244 RRL-----RQKK-VLLVIDDVAHV-----EQLRRLAGKRDWFGPGSRIIITTRDE-------HLLKL-HRVEEV-FKLEA  303 (483)
Q Consensus       244 ~~l-----~~~~-~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~iliTtR~~-------~~~~~-~~~~~~-~~l~~  303 (483)
                      +.+     ++++ +.+++|+..+.     +.++-|...-...+..-+|+..-..+       ..... .....+ |+++|
T Consensus       120 ~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P  199 (269)
T COG3267         120 RELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPP  199 (269)
T ss_pred             HHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCC
Confidence            322     3455 99999999543     44444444333222223344433211       11111 112223 89999


Q ss_pred             CChHHHHHHHHHhhccCCCCCch-HHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          304 LTYDEAFQLFCLKAFETQKPREE-YVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       304 L~~~ea~~L~~~~~~~~~~~~~~-~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      ++.++...+++.+..+...+.+. ..+....|.....|.|.++..++..
T Consensus       200 ~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         200 LTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             cChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            99999999998887665433332 3466788999999999999887654

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

Probab=98.23  E-value=7.7e-06  Score=87.16  Aligned_cols=152  Identities=18%  Similarity=0.191  Sum_probs=86.7

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++++||+.+++.+.+.|....  ..-+.++|++|+|||++|+.+++++...-      ...+|..+.             
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~-------------  250 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI-------------  250 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccH-------------
Confidence            579999999999999888632  24457899999999999999998764321      112221110             


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH----------HHHHH-HhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV----------EQLRR-LAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------~~~~~-l~~~~~~~~~~~~iliTt  284 (483)
                       ..+    .. ......+.+.....+...+ ...+.+|+||+++..          ..... +.+.+.  ....++|-+|
T Consensus       251 -~~l----la-G~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgAT  322 (758)
T PRK11034        251 -GSL----LA-GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  322 (758)
T ss_pred             -HHH----hc-ccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecC
Confidence             011    10 0011122233333333333 356789999999532          12222 222221  2234455555


Q ss_pred             CCHhHHh-------hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLLK-------LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+....       .....+.+.+++++.+++.+++....
T Consensus       323 t~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        323 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             ChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            4332210       11233579999999999999998543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=0.0002  Score=74.47  Aligned_cols=190  Identities=15%  Similarity=0.122  Sum_probs=107.0

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ...++|.+...+.|.+++..+. -.+.+.++|+.|+|||++|+.++..+-..-+..         ..+.+. ......+.
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~---------~~pC~~-C~~C~~i~   83 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD---------GEPCNE-CEICKAIT   83 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------CCCCCc-cHHHHHHh
Confidence            3689999999999999988542 246788899999999999999998653211000         000000 00111110


Q ss_pred             HH----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCC-HhH
Q 038919          222 SD----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRD-EHL  289 (483)
Q Consensus       222 ~~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~-~~~  289 (483)
                      ..    +...........++ +..+.+..     .++.-++|+|+++..  .....|+..+..-...+.+|++|.+ ..+
T Consensus        84 ~g~~~dv~eidaas~~~vd~-ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki  162 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDE-IRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKI  162 (559)
T ss_pred             cCCCCCeEEeeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhC
Confidence            00    00000000011111 11122221     245668899999743  5566666655543445555554443 333


Q ss_pred             Hhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          290 LKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       290 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ... ......+++.+++.++..+.+...+......  ...+.+..|++.++|.+.-+
T Consensus       163 ~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~--i~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        163 PATILSRCQRFDFKRISVEDIVERLKYILDKEGIE--YEDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             cHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            222 2234568899999999999988776433221  22356778888999887543

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

Probab=98.21  E-value=0.00026  Score=64.09  Aligned_cols=51  Identities=24%  Similarity=0.401  Sum_probs=40.3

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.++|.+.+.+.|.+-...  ......-+.+||..|+|||+|++++.+.+...
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            6899999999998864322  11234568889999999999999999987765

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.21  E-value=5.3e-05  Score=76.32  Aligned_cols=150  Identities=15%  Similarity=0.117  Sum_probs=86.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      ..+.|+|++|+|||+|+..+++.+.......+++. .          ..+...+...+..      ..    ...++..+
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~-~----------~~f~~~~~~~l~~------~~----~~~f~~~~  200 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR-S----------ELFTEHLVSAIRS------GE----MQRFRQFY  200 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee-H----------HHHHHHHHHHHhc------ch----HHHHHHHc
Confidence            56889999999999999999998765433334433 1          2222233333211      01    12233333


Q ss_pred             hcCceEEEEcCCCCH-------HHHHHHhcCCCCCCCCcEEEEEcCC-HhH--------HhhCCCcceEecCCCChHHHH
Q 038919          247 RQKKVLLVIDDVAHV-------EQLRRLAGKRDWFGPGSRIIITTRD-EHL--------LKLHRVEEVFKLEALTYDEAF  310 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~-------~~~~~l~~~~~~~~~~~~iliTtR~-~~~--------~~~~~~~~~~~l~~L~~~ea~  310 (483)
                      + ..-+|++||+...       +.+-.++..+.  ..|..||+||.. +..        ...+...-.+.+.+++.++-.
T Consensus       201 ~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~--~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~  277 (445)
T PRK12422        201 R-NVDALFIEDIEVFSGKGATQEEFFHTFNSLH--TEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLR  277 (445)
T ss_pred             c-cCCEEEEcchhhhcCChhhHHHHHHHHHHHH--HCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHH
Confidence            3 3458889998432       12222222211  235678888754 221        222333467899999999999


Q ss_pred             HHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          311 QLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       311 ~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .++.+.+.....  ....++..-|+..+.++-
T Consensus       278 ~iL~~k~~~~~~--~l~~evl~~la~~~~~di  307 (445)
T PRK12422        278 SFLERKAEALSI--RIEETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHHHHcCC--CCCHHHHHHHHHhcCCCH
Confidence            999887744321  223456666777777664

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.21  E-value=2.7e-05  Score=73.90  Aligned_cols=130  Identities=16%  Similarity=0.157  Sum_probs=71.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      -+.++|++|+|||++|+.+++.+....  ....|+. +.       . ..    +...+.+..   .   ......+.. 
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~-v~-------~-~~----l~~~~~g~~---~---~~~~~~~~~-  119 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVS-VT-------R-DD----LVGQYIGHT---A---PKTKEILKR-  119 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEE-ec-------H-HH----HhHhhcccc---h---HHHHHHHHH-
Confidence            588999999999999998887665321  1112222 10       0 11    122221111   0   111112222 


Q ss_pred             HhcCceEEEEcCCCCH-----------HHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhC--------CCcceEecCCCCh
Q 038919          246 LRQKKVLLVIDDVAHV-----------EQLRRLAGKRDWFGPGSRIIITTRDEHLLKLH--------RVEEVFKLEALTY  306 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~--------~~~~~~~l~~L~~  306 (483)
                        -.+-+|+||+++..           +....|+..+.....+.+||+++.....-...        .....+.+++++.
T Consensus       120 --a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~  197 (284)
T TIGR02880       120 --AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSE  197 (284)
T ss_pred             --ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCH
Confidence              13468999999632           23445555444334566777776543221110        1235689999999


Q ss_pred             HHHHHHHHHhhcc
Q 038919          307 DEAFQLFCLKAFE  319 (483)
Q Consensus       307 ~ea~~L~~~~~~~  319 (483)
                      +|-.+++...+-.
T Consensus       198 edl~~I~~~~l~~  210 (284)
T TIGR02880       198 AELLVIAGLMLKE  210 (284)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999877643

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.20  E-value=6.1e-05  Score=77.58  Aligned_cols=179  Identities=18%  Similarity=0.206  Sum_probs=98.6

Q ss_pred             HhhhchhHHHHHHHHHhh---c-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMG---A-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~---~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.+...+++.+++.   .       +....+-+.++|++|+|||+||+.++......    ++..+.         
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~----~~~i~~---------  121 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP----FFSISG---------  121 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC----eeeccH---------
Confidence            678888877666655432   1       12224568999999999999999999864322    111110         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF--  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--  274 (483)
                       ..+.    ....+.      ........+.......+.+|+||+++..                ..+..++..+..+  
T Consensus       122 -~~~~----~~~~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~  190 (495)
T TIGR01241       122 -SDFV----EMFVGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT  190 (495)
T ss_pred             -HHHH----HHHhcc------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC
Confidence             1111    111110      1111222333344567899999999543                1223333333221  


Q ss_pred             CCCcEEEEEcCCHhH-----HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHHHH
Q 038919          275 GPGSRIIITTRDEHL-----LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALKVL  348 (483)
Q Consensus       275 ~~~~~iliTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~l  348 (483)
                      ..+..||.||..+..     ......+..+.++..+.++-.+++..++.......   ......+++.+.|. +--|..+
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            234456666665432     11123456789999999999999988764432221   12245777778774 3444433

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.20  E-value=2.1e-05  Score=72.41  Aligned_cols=49  Identities=16%  Similarity=0.131  Sum_probs=33.0

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      +..+.+....-..+...+.++|.+|+|||+||.++++.+......++++
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            3344444432222345789999999999999999999886654444444

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=0.00013  Score=76.27  Aligned_cols=192  Identities=17%  Similarity=0.166  Sum_probs=106.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..+||.+...+.|.+.+..+. -...+.++|+.|+||||+|+.+++.+-..-...         ....+. ......+..
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~---------~~~c~~-c~~c~~i~~   84 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLT---------AEPCNV-CPPCVEITE   84 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC---------CCCCCc-cHHHHHHhc
Confidence            689999999999999887532 246678999999999999999998653210000         000000 000000000


Q ss_pred             H----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcC-CHhHH
Q 038919          223 D----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTR-DEHLL  290 (483)
Q Consensus       223 ~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR-~~~~~  290 (483)
                      .    +...........++ +..+.+.+     .++.-++|+|+++..  .....|+..+....+.+.+|++|. ...+.
T Consensus        85 g~~~d~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         85 GRSVDVFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             CCCCCeeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            0    00000000011111 11122222     234458899999643  445566655544345666665554 33343


Q ss_pred             hh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh-HHHHHH
Q 038919          291 KL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP-LALKVL  348 (483)
Q Consensus       291 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~l  348 (483)
                      .. ......+++.+++.++....+...+......  ...+.+..|++.++|.. .++..+
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~--i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS--ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            22 2234568899999999988887765433221  22356778889999976 444444

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

Probab=98.19  E-value=4.7e-05  Score=71.65  Aligned_cols=172  Identities=15%  Similarity=0.266  Sum_probs=100.5

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ...=|.+.++++|.+....           +=..++=|.+||+||.|||-||++++++....|     +.-++       
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtF-----Irvvg-------  218 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF-----IRVVG-------  218 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceE-----EEecc-------
Confidence            4566888999998886542           112356689999999999999999999765543     32111       


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                        ..+.+    ...+.+       ...+..+.+.. .+.+++|.+|.++..                ..+-.|+..+.-|
T Consensus       219 --SElVq----KYiGEG-------aRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGF  285 (406)
T COG1222         219 --SELVQ----KYIGEG-------ARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGF  285 (406)
T ss_pred             --HHHHH----HHhccc-------hHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCC
Confidence              22222    222221       11222222222 367999999998532                1133444444433


Q ss_pred             C--CCcEEEEEcCCHh-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 G--PGSRIIITTRDEH-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 ~--~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .  .+.+||..|...+     ++.....++.++++.-+.+.-.++|.-+...-....+.   -.+.+++.|.|.-
T Consensus       286 D~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dv---d~e~la~~~~g~s  357 (406)
T COG1222         286 DPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDV---DLELLARLTEGFS  357 (406)
T ss_pred             CCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCc---CHHHHHHhcCCCc
Confidence            3  4568887766443     33344566788998666666677777666432221111   1455666677764

>CHL00176 ftsH cell division protein; Validated

Probab=98.19  E-value=6.7e-05  Score=78.66  Aligned_cols=171  Identities=16%  Similarity=0.207  Sum_probs=98.0

Q ss_pred             HhhhchhHHHHHHHHHh---hcC-------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLM---GAG-------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L---~~~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.++..+++.+.+   ...       ....+-+.++|++|+|||+||+.++......    ++..+.         
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p----~i~is~---------  249 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP----FFSISG---------  249 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC----eeeccH---------
Confidence            56888887666666543   221       1124568999999999999999999865322    111111         


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF--  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--  274 (483)
                       ..+..    ...+.      ........+.......+++|+|||++..                ..+..++..+..+  
T Consensus       250 -s~f~~----~~~g~------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~  318 (638)
T CHL00176        250 -SEFVE----MFVGV------GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG  318 (638)
T ss_pred             -HHHHH----Hhhhh------hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC
Confidence             11111    00000      1112223344445578999999999643                1244444333221  


Q ss_pred             CCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC
Q 038919          275 GPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG  340 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G  340 (483)
                      ..+..||.||.....+.     ....+..+.++..+.++-.++++.++......   .......+++.+.|
T Consensus       319 ~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~---~d~~l~~lA~~t~G  386 (638)
T CHL00176        319 NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS---PDVSLELIARRTPG  386 (638)
T ss_pred             CCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc---hhHHHHHHHhcCCC
Confidence            24556666776543322     12345678899999999999998887542211   12345667777777

>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=98.15  E-value=2.2e-05  Score=65.25  Aligned_cols=23  Identities=43%  Similarity=0.569  Sum_probs=21.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      |.|+|++|+|||++|+.+++.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            57999999999999999999875

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 ....

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

Probab=98.14  E-value=0.00026  Score=70.47  Aligned_cols=240  Identities=18%  Similarity=0.116  Sum_probs=130.1

Q ss_pred             chhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhc
Q 038919          147 GIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLK  226 (483)
Q Consensus       147 GR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~  226 (483)
                      -|...+..+.+.+...   ..++.|+|+-++|||||++.+.......   .+++.........    ..+ .+.+     
T Consensus        21 ~~~~~~~~l~~~~~~~---~~i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~----~~l-~d~~-----   84 (398)
T COG1373          21 ERRKLLPRLIKKLDLR---PFIILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDR----IEL-LDLL-----   84 (398)
T ss_pred             hHHhhhHHHHhhcccC---CcEEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcch----hhH-HHHH-----
Confidence            3334455555554432   2299999999999999997777765544   3444322111111    011 1111     


Q ss_pred             ccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh------CCCcceEe
Q 038919          227 LADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKL------HRVEEVFK  300 (483)
Q Consensus       227 ~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~------~~~~~~~~  300 (483)
                                   ..+...-..++..++||.|.....|...+..+...++. +|++|+.+......      .+....+.
T Consensus        85 -------------~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~  150 (398)
T COG1373          85 -------------RAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLE  150 (398)
T ss_pred             -------------HHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEE
Confidence                         11111111267899999999998888877766654555 88888887654322      23456789


Q ss_pred             cCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhccCCCccHHHHHH
Q 038919          301 LEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQ  380 (483)
Q Consensus       301 l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~~~~~~v~~~l~  380 (483)
                      +.||+..|-..+.....    ... .... .-+-.-.+||.|-++..-...-.  ........+.          .++.+
T Consensus       151 l~PlSF~Efl~~~~~~~----~~~-~~~~-~f~~Yl~~GGfP~~v~~~~~~~~--~~~~~~~~~~----------~Di~~  212 (398)
T COG1373         151 LYPLSFREFLKLKGEEI----EPS-KLEL-LFEKYLETGGFPESVKADLSEKK--LKEYLDTILK----------RDIIE  212 (398)
T ss_pred             ECCCCHHHHHhhccccc----chh-HHHH-HHHHHHHhCCCcHHHhCcchhhH--HHHHHHHHHH----------HHHHH
Confidence            99999999877653100    000 1111 22334557999988864322110  0011111110          01111


Q ss_pred             Hhh-cCCcHHHHHHHhhhhc-CCCCCCHHHHHHHHH-hCCCChhhhHHHHhhCCceeE
Q 038919          381 ISF-DGLKEAEKEIFLDVAC-FFKGEKRDYVSKILD-SCGFEPVIGIGVLIEKSLLTI  435 (483)
Q Consensus       381 ~s~-~~L~~~~k~~l~~la~-f~~~~~~~~l~~~~~-~~~~~~~~~l~~L~~~sLi~~  435 (483)
                      ..- ... +..+.++..++- .+..++...+...+. .+.......++.|.+.-++..
T Consensus       213 ~~~~~~~-~~~k~i~~~l~~~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~  269 (398)
T COG1373         213 RGKIENA-DLMKRILRFLASNIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLFL  269 (398)
T ss_pred             HcCcccH-HHHHHHHHHHHhhcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheEE
Confidence            110 011 344555544444 445678888888883 444445666777877777764

>CHL00181 cbbX CbbX; Provisional

Probab=98.14  E-value=0.00016  Score=68.70  Aligned_cols=132  Identities=17%  Similarity=0.180  Sum_probs=72.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc-c-ceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE-F-DGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ...+.++|++|+|||++|+.+++..... + ...-|+. +.       . ..    +...+.+..   .   ......+.
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~-v~-------~-~~----l~~~~~g~~---~---~~~~~~l~  119 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT-VT-------R-DD----LVGQYIGHT---A---PKTKEVLK  119 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE-ec-------H-HH----HHHHHhccc---h---HHHHHHHH
Confidence            3458899999999999999998865321 1 1111221 10       0 11    222221111   0   11111122


Q ss_pred             HHHhcCceEEEEcCCCCH-----------HHHHHHhcCCCCCCCCcEEEEEcCCHhHHh--------hCCCcceEecCCC
Q 038919          244 RRLRQKKVLLVIDDVAHV-----------EQLRRLAGKRDWFGPGSRIIITTRDEHLLK--------LHRVEEVFKLEAL  304 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~iliTtR~~~~~~--------~~~~~~~~~l~~L  304 (483)
                      .   ...-+|+||+++..           +....|...+.....+.+||+++.......        .......+.++++
T Consensus       120 ~---a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~  196 (287)
T CHL00181        120 K---AMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDY  196 (287)
T ss_pred             H---ccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCc
Confidence            2   12359999999642           344555554444345667777775432211        1123457899999


Q ss_pred             ChHHHHHHHHHhhcc
Q 038919          305 TYDEAFQLFCLKAFE  319 (483)
Q Consensus       305 ~~~ea~~L~~~~~~~  319 (483)
                      +.+|..+++...+..
T Consensus       197 t~~el~~I~~~~l~~  211 (287)
T CHL00181        197 TPEELLQIAKIMLEE  211 (287)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887643

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=0.00029  Score=67.50  Aligned_cols=93  Identities=12%  Similarity=0.104  Sum_probs=61.4

Q ss_pred             cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          248 QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       248 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      ++.=++|+|+++..  ..-..|+..+..-.+++.+|++|.+. .+++. ......+.+.+++.+++.+.+....    . 
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~----~-  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG----V-  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC----C-
Confidence            34568999999754  45555655554445677777777654 33332 2344678999999999999987541    1 


Q ss_pred             CchHHHHHHHHHHHhCCChHHHHHH
Q 038919          324 REEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      +   ...+..++..++|.|+....+
T Consensus       187 ~---~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        187 S---ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             C---hHHHHHHHHHcCCCHHHHHHH
Confidence            1   123567899999999866544

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

Probab=98.09  E-value=0.00016  Score=67.51  Aligned_cols=185  Identities=18%  Similarity=0.131  Sum_probs=104.8

Q ss_pred             HHHHHHHHHhhcC-CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccce-----eEEEEecccccccCCcHHHHHHHHHHH
Q 038919          150 SRLEKLKFLMGAG-CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG-----SSFLADVKEKYDKEGSVISLQKQLISD  223 (483)
Q Consensus       150 ~~l~~l~~~L~~~-~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-----~~~~~~~~~~~~~~~~~~~l~~~ll~~  223 (483)
                      ..++.|.+++... ....+.+.|+|.+|+|||++++.+...+-..++.     .++..   +....++. ..+...++..
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~v---q~P~~p~~-~~~Y~~IL~~  119 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYV---QMPPEPDE-RRFYSAILEA  119 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEE---ecCCCCCh-HHHHHHHHHH
Confidence            4566677777653 3446789999999999999999999865433321     12222   12233333 7777788877


Q ss_pred             HhcccCCCccchhhhHHHHHHHHhc-CceEEEEcCCCCH-----H-------HHHHHhcCCCCCCCCcEEEEEcCCH---
Q 038919          224 LLKLADNSIRNVYDGINMIGRRLRQ-KKVLLVIDDVAHV-----E-------QLRRLAGKRDWFGPGSRIIITTRDE---  287 (483)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~-----~-------~~~~l~~~~~~~~~~~~iliTtR~~---  287 (483)
                      +..... ...............++. +.=+||+|++.+.     .       .++.+...    -.=+-|.+-|++-   
T Consensus       120 lgaP~~-~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~Ne----L~ipiV~vGt~~A~~a  194 (302)
T PF05621_consen  120 LGAPYR-PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNE----LQIPIVGVGTREAYRA  194 (302)
T ss_pred             hCcccC-CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhc----cCCCeEEeccHHHHHH
Confidence            654432 233444444555556654 3449999999653     1       12333222    2233455555432   


Q ss_pred             -----hHHhhCCCcceEecCCCChH-HHHHHHHHhhcc---CCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          288 -----HLLKLHRVEEVFKLEALTYD-EAFQLFCLKAFE---TQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       288 -----~~~~~~~~~~~~~l~~L~~~-ea~~L~~~~~~~---~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                           +...   ....+.+++...+ +...|+......   .....-...+++..|+..++|+.=-+.
T Consensus       195 l~~D~QLa~---RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  195 LRTDPQLAS---RFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             hccCHHHHh---ccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence                 2222   2345667776654 445555433211   111122346788999999999875443

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

>PRK12377 putative replication protein; Provisional

Probab=98.09  E-value=8.9e-05  Score=68.44  Aligned_cols=36  Identities=17%  Similarity=0.119  Sum_probs=28.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+.|+|++|+|||.||.++++.+......+.|+.
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            357899999999999999999998876544444443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.06  E-value=0.00015  Score=76.25  Aligned_cols=46  Identities=30%  Similarity=0.391  Sum_probs=38.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++|++..+..+.+.+..  .....+.|+|++|+||||||+.+++..
T Consensus       154 ~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             HhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            6789999999988777653  334679999999999999999998755

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.

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

Probab=98.04  E-value=8.8e-05  Score=70.41  Aligned_cols=200  Identities=19%  Similarity=0.245  Sum_probs=110.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCC-cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCND-VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      +.+.+|+.++..+..++...+.. +..+.|+|.+|.|||.+.+++.+....+   .+|+. +.+....    ..+...++
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~---~vw~n-~~ecft~----~~lle~IL   77 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE---NVWLN-CVECFTY----AILLEKIL   77 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc---ceeee-hHHhccH----HHHHHHHH
Confidence            57899999999999999876554 4456999999999999999999976322   35554 3333332    56666676


Q ss_pred             HHHhcccCCC------ccchhhhHHHHHH--HHh--cCceEEEEcCCCCHHHHH-----HHhcCCCCCCCCcEEEEEcCC
Q 038919          222 SDLLKLADNS------IRNVYDGINMIGR--RLR--QKKVLLVIDDVAHVEQLR-----RLAGKRDWFGPGSRIIITTRD  286 (483)
Q Consensus       222 ~~~~~~~~~~------~~~~~~~~~~l~~--~l~--~~~~LlVlDdv~~~~~~~-----~l~~~~~~~~~~~~iliTtR~  286 (483)
                      .+........      ..+....+..+.+  ...  ++.++|||||++...+.+     .++....-......+|+++-.
T Consensus        78 ~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~  157 (438)
T KOG2543|consen   78 NKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAP  157 (438)
T ss_pred             HHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEecc
Confidence            6653111111      1122233333333  222  358999999997654322     111110000122334444432


Q ss_pred             ---HhHHhhCCCc--ceEecCCCChHHHHHHHHHhhccCCCC--CchHHHH-HHHHHHHhCCChHHHHHHHHH
Q 038919          287 ---EHLLKLHRVE--EVFKLEALTYDEAFQLFCLKAFETQKP--REEYVHL-SQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       287 ---~~~~~~~~~~--~~~~l~~L~~~ea~~L~~~~~~~~~~~--~~~~~~~-~~~i~~~~~G~PLal~~la~~  351 (483)
                         .......+..  .++..+.-+.+|..+++.+.-.+....  -..+-.+ ..-+...|+ -+-.+..++..
T Consensus       158 ~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~  229 (438)
T KOG2543|consen  158 SCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISL  229 (438)
T ss_pred             ccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHH
Confidence               1222212222  346678899999999986654321110  0122222 233455565 56666655554

>PRK08116 hypothetical protein; Validated

Probab=98.02  E-value=5.4e-05  Score=71.09  Aligned_cols=100  Identities=25%  Similarity=0.305  Sum_probs=55.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      ..+.|+|.+|+|||.||.++++.+......++|+. .          ..++..+.......   ...+    ...+.+.+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-~----------~~ll~~i~~~~~~~---~~~~----~~~~~~~l  176 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-F----------PQLLNRIKSTYKSS---GKED----ENEIIRSL  176 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-H----------HHHHHHHHHHHhcc---cccc----HHHHHHHh
Confidence            45899999999999999999998876533344443 1          33333333322111   1111    11233334


Q ss_pred             hcCceEEEEcCCC----CH---HHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          247 RQKKVLLVIDDVA----HV---EQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       247 ~~~~~LlVlDdv~----~~---~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .+-. ||||||+.    +.   +.+-.++...  ...+..+||||...
T Consensus       177 ~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r--~~~~~~~IiTsN~~  221 (268)
T PRK08116        177 VNAD-LLILDDLGAERDTEWAREKVYNIIDSR--YRKGLPTIVTTNLS  221 (268)
T ss_pred             cCCC-EEEEecccCCCCCHHHHHHHHHHHHHH--HHCCCCEEEECCCC
Confidence            4444 89999993    11   2222232221  13566789988743

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.02  E-value=0.00015  Score=73.60  Aligned_cols=175  Identities=15%  Similarity=0.128  Sum_probs=93.2

Q ss_pred             HhhhchhHHHHHHHHH---hhc-----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHH
Q 038919          143 KELVGIESRLEKLKFL---MGA-----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVI  214 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~---L~~-----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  214 (483)
                      .++.|.+...+.+...   +..     +-..++-+.++|++|+|||.+|+.+++...-.    ++..+....        
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~----~~~l~~~~l--------  295 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP----LLRLDVGKL--------  295 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC----EEEEEhHHh--------
Confidence            4667776555555432   111     12235678999999999999999999976433    222211110        


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH--------------HHHHHhcCCCCCCCCcEE
Q 038919          215 SLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE--------------QLRRLAGKRDWFGPGSRI  280 (483)
Q Consensus       215 ~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--------------~~~~l~~~~~~~~~~~~i  280 (483)
                            .....+.      +.......+...-...+++|++|+++...              .+..++..+.....+..|
T Consensus       296 ------~~~~vGe------se~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~v  363 (489)
T CHL00195        296 ------FGGIVGE------SESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFV  363 (489)
T ss_pred             ------cccccCh------HHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEE
Confidence                  0000000      01111122222234579999999996421              112222222222344556


Q ss_pred             EEEcCCHhHH-----hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          281 IITTRDEHLL-----KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       281 liTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      |.||.+...+     .....+..+.++..+.++-.++|..+..+..... ........+++.+.|.-
T Consensus       364 IaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~-~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        364 VATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKS-WKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             EEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCc-ccccCHHHHHhhcCCCC
Confidence            6677655322     2224556788999999999999988775432111 00112455666666653

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.02  E-value=7.4e-05  Score=77.80  Aligned_cols=54  Identities=22%  Similarity=0.323  Sum_probs=43.6

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCC---CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGC---NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|..+..++|-+..++++..++....   ...++++|+|++|+||||+++.++..+.
T Consensus        79 rP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        79 KPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34445789999999999999987532   2346899999999999999999998654

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

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

Probab=98.00  E-value=8.5e-06  Score=75.25  Aligned_cols=94  Identities=15%  Similarity=0.128  Sum_probs=56.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc-ccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccc-----hhhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH-EFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRN-----VYDG  238 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~-----~~~~  238 (483)
                      ..+.++|.|++|+|||||++.+++.+.. +|+..+|+..+.+..  ... .++++.+...+..........     ....
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~--~ev-~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERP--EEV-TDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCC--ccH-HHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            3478999999999999999999998754 577777876444321  122 566666532222211111111     1111


Q ss_pred             HHHHHHH-HhcCceEEEEcCCCCH
Q 038919          239 INMIGRR-LRQKKVLLVIDDVAHV  261 (483)
Q Consensus       239 ~~~l~~~-l~~~~~LlVlDdv~~~  261 (483)
                      ....... -.++++++++|++...
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHh
Confidence            2222222 2478999999999543

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.98  E-value=2e-05  Score=76.13  Aligned_cols=94  Identities=15%  Similarity=0.123  Sum_probs=56.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc-ccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchh-----hh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH-EFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVY-----DG  238 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~-----~~  238 (483)
                      ..+..+|+|++|+|||||++.+++.+.. +|+..+|+..+.+...  . +..+++.+...+............     ..
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~--E-VtdiqrsIlg~vv~st~d~~~~~~~~~a~~~  244 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPE--E-VTDMQRSVKGEVVASTFDEPAERHVQVAEMV  244 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchh--H-HHHHHHHhcCcEEEECCCCCHHHHHHHHHHH
Confidence            3467899999999999999999998765 6888888876554221  2 255555554322211111111111     11


Q ss_pred             HHHHHHH-HhcCceEEEEcCCCCH
Q 038919          239 INMIGRR-LRQKKVLLVIDDVAHV  261 (483)
Q Consensus       239 ~~~l~~~-l~~~~~LlVlDdv~~~  261 (483)
                      ++..... ..+++++|++|++...
T Consensus       245 ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        245 IEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHcCCCEEEEEEChHHH
Confidence            1111221 2579999999999543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.97  E-value=0.0003  Score=76.14  Aligned_cols=173  Identities=16%  Similarity=0.197  Sum_probs=94.0

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      .++.|.+..++.+.+++..           +-...+-+.|+|++|+|||+||+.+++.....|    +..+...      
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~----i~i~~~~------  247 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF----ISINGPE------  247 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE----EEEecHH------
Confidence            5688999999998876532           112346688999999999999999998764332    2221111      


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCC-CCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWF-GPG  277 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~-~~~  277 (483)
                          +.    ....+      .........+.....+.+.+|+||+++..             .....|+..+... ..+
T Consensus       248 ----i~----~~~~g------~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~  313 (733)
T TIGR01243       248 ----IM----SKYYG------ESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG  313 (733)
T ss_pred             ----Hh----ccccc------HHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCC
Confidence                00    00000      01111222233334567789999998532             1122333322211 223


Q ss_pred             cEEEE-EcCCHhHH-hh----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          278 SRIII-TTRDEHLL-KL----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       278 ~~ili-TtR~~~~~-~~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      ..++| ||...... ..    ......+.++..+.++-.+++..+........   ......+++.+.|..
T Consensus       314 ~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~---d~~l~~la~~t~G~~  381 (733)
T TIGR01243       314 RVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE---DVDLDKLAEVTHGFV  381 (733)
T ss_pred             CEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc---ccCHHHHHHhCCCCC
Confidence            33444 55433211 11    12345678888899988888886543222111   122566777777764

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.

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

Probab=97.97  E-value=0.00064  Score=60.27  Aligned_cols=52  Identities=25%  Similarity=0.350  Sum_probs=42.3

Q ss_pred             hHHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          138 ESEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       138 ~~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|..+.++||-+..++.+.-.-..  ++.+-+.|.||||+||||-+..+++.+-
T Consensus        22 rP~~l~dIVGNe~tv~rl~via~~--gnmP~liisGpPG~GKTTsi~~LAr~LL   73 (333)
T KOG0991|consen   22 RPSVLQDIVGNEDTVERLSVIAKE--GNMPNLIISGPPGTGKTTSILCLARELL   73 (333)
T ss_pred             CchHHHHhhCCHHHHHHHHHHHHc--CCCCceEeeCCCCCchhhHHHHHHHHHh
Confidence            344557899999999988876653  3568899999999999999999998754

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

Probab=97.93  E-value=0.00068  Score=66.48  Aligned_cols=152  Identities=15%  Similarity=0.133  Sum_probs=89.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ....+.|||..|.|||.|+.++++......+...++..-.         ......+...+..          .....+++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~s---------e~f~~~~v~a~~~----------~~~~~Fk~  172 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTS---------EDFTNDFVKALRD----------NEMEKFKE  172 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccH---------HHHHHHHHHHHHh----------hhHHHHHH
Confidence            3678999999999999999999999887776443333110         2223333333221          11223444


Q ss_pred             HHhcCceEEEEcCCCC-------HHHHHHHhcCCCCCCCCcEEEEEcCCH---------hHHhhCCCcceEecCCCChHH
Q 038919          245 RLRQKKVLLVIDDVAH-------VEQLRRLAGKRDWFGPGSRIIITTRDE---------HLLKLHRVEEVFKLEALTYDE  308 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~-------~~~~~~l~~~~~~~~~~~~iliTtR~~---------~~~~~~~~~~~~~l~~L~~~e  308 (483)
                      ..  .-=++++||++-       .+.+-.++..+.  ..|..||+|++..         .+.......-++.+.+++.+.
T Consensus       173 ~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~--~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~  248 (408)
T COG0593         173 KY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALL--ENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDET  248 (408)
T ss_pred             hh--ccCeeeechHhHhcCChhHHHHHHHHHHHHH--hcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHH
Confidence            44  233889999942       222333333332  3445899998643         223334455689999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          309 AFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       309 a~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                      ...++.+.+......  ...++..-++.....+
T Consensus       249 r~aiL~kka~~~~~~--i~~ev~~~la~~~~~n  279 (408)
T COG0593         249 RLAILRKKAEDRGIE--IPDEVLEFLAKRLDRN  279 (408)
T ss_pred             HHHHHHHHHHhcCCC--CCHHHHHHHHHHhhcc
Confidence            999998866433321  1123444444444443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.91  E-value=0.0004  Score=75.16  Aligned_cols=173  Identities=13%  Similarity=0.176  Sum_probs=96.1

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+...+.|.+.+..           +-..++-+.++|++|+|||+||+++++.....|    +....        
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f----i~v~~--------  520 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF----IAVRG--------  520 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE----EEEeh--------
Confidence            4577888777777665431           112245688999999999999999999765432    22111        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--------------HHHHHHhcCCCCC--C
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--------------EQLRRLAGKRDWF--G  275 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--------------~~~~~l~~~~~~~--~  275 (483)
                        ..    ++....+.      ........+...-...+.+|+||+++..              ..+..++..+...  .
T Consensus       521 --~~----l~~~~vGe------se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~  588 (733)
T TIGR01243       521 --PE----ILSKWVGE------SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQEL  588 (733)
T ss_pred             --HH----HhhcccCc------HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCC
Confidence              11    11111110      1111122223333467899999998532              1233344333211  2


Q ss_pred             CCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          276 PGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .+..||.||..+..+..     ...+..+.++..+.++-.++|..+..+......   .....+++.+.|.-
T Consensus       589 ~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~---~~l~~la~~t~g~s  657 (733)
T TIGR01243       589 SNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED---VDLEELAEMTEGYT  657 (733)
T ss_pred             CCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCcc---CCHHHHHHHcCCCC
Confidence            34556667765543221     234567889999999999999766533322111   11455667777654

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.89  E-value=0.00069  Score=65.84  Aligned_cols=162  Identities=14%  Similarity=0.066  Sum_probs=88.4

Q ss_pred             Hhhhc-hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVG-IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vG-R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++| -+...+.+...+..+ .-.....++|+.|+|||++|..+++.+-..-+...-         ..+. ......+.
T Consensus         5 ~~i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~---------~cg~-C~~c~~~~   73 (329)
T PRK08058          5 EQLTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE---------PCGT-CTNCKRID   73 (329)
T ss_pred             HHHHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC---------CCCc-CHHHHHHh
Confidence            35677 666777788877643 235678999999999999999999875321100000         0000 00000000


Q ss_pred             HHHhc----c-cCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-
Q 038919          222 SDLLK----L-ADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-  288 (483)
Q Consensus       222 ~~~~~----~-~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-  288 (483)
                      .....    . ........++..+. .+.+     .+.+=++|+|+++.  .+....|+..+..-.+++.+|++|.++. 
T Consensus        74 ~~~hpD~~~i~~~~~~i~id~ir~l-~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~  152 (329)
T PRK08058         74 SGNHPDVHLVAPDGQSIKKDQIRYL-KEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQ  152 (329)
T ss_pred             cCCCCCEEEeccccccCCHHHHHHH-HHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHh
Confidence            00000    0 00000111222221 1221     23445799999964  3455666666655467777777776543 


Q ss_pred             HHhh-CCCcceEecCCCChHHHHHHHHHh
Q 038919          289 LLKL-HRVEEVFKLEALTYDEAFQLFCLK  316 (483)
Q Consensus       289 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~  316 (483)
                      +.+. ......+++.+++.++..+.+...
T Consensus       153 ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        153 ILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            2222 234567999999999998888654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.87  E-value=6.2e-05  Score=63.05  Aligned_cols=28  Identities=39%  Similarity=0.347  Sum_probs=24.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +.+.|+|++|+||||++..++..+....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            5789999999999999999999876654

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.86  E-value=0.003  Score=60.59  Aligned_cols=91  Identities=14%  Similarity=0.155  Sum_probs=61.2

Q ss_pred             cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          248 QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       248 ~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      ++.=++|+|+++.  ......|+..+..-.+++.+|++|.++ .+++. ......+.+.+++.+++.+.+.....     
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~~-----  181 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQGI-----  181 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcCC-----
Confidence            3445889999974  455666666555446677777766654 33333 33456789999999999999876421     


Q ss_pred             CchHHHHHHHHHHHhCCChHHHHHH
Q 038919          324 REEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .     ....++..++|.|+....+
T Consensus       182 ~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        182 T-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             c-----hHHHHHHHcCCCHHHHHHH
Confidence            1     1346788999999876554

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

Probab=97.84  E-value=0.00072  Score=66.87  Aligned_cols=130  Identities=18%  Similarity=0.159  Sum_probs=76.4

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      .....+.+.|++|+|||+||.+++.  .+.|+.+-.+. ..   +-.++ .+                ............
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~--~S~FPFvKiiS-pe---~miG~-sE----------------saKc~~i~k~F~  592 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL--SSDFPFVKIIS-PE---DMIGL-SE----------------SAKCAHIKKIFE  592 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh--hcCCCeEEEeC-hH---HccCc-cH----------------HHHHHHHHHHHH
Confidence            4466788999999999999999987  56777655443 00   00111 00                000111112223


Q ss_pred             HHHhcCceEEEEcCCCCHH---------------HHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCC----CcceEecCCC
Q 038919          244 RRLRQKKVLLVIDDVAHVE---------------QLRRLAGKRDWFGPGSRIIITTRDEHLLKLHR----VEEVFKLEAL  304 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~~---------------~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~----~~~~~~l~~L  304 (483)
                      ...+..=-+||+||++..-               .+.-++...+..+...-|+-||....++..++    ....+.|+.+
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            3334555699999996542               22233333332233334555777788887765    3357899999


Q ss_pred             Ch-HHHHHHHHHh
Q 038919          305 TY-DEAFQLFCLK  316 (483)
Q Consensus       305 ~~-~ea~~L~~~~  316 (483)
                      +. ++..+.++..
T Consensus       673 ~~~~~~~~vl~~~  685 (744)
T KOG0741|consen  673 TTGEQLLEVLEEL  685 (744)
T ss_pred             CchHHHHHHHHHc
Confidence            88 6777777654

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.84  E-value=0.00073  Score=64.83  Aligned_cols=151  Identities=23%  Similarity=0.215  Sum_probs=79.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc-ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY-DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      .+..++|||++|+|||.+|+.++..+...|    +..+..+.. ...+-.....+++.                  ....
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~~----i~vsa~eL~sk~vGEsEk~IR~~F------------------~~A~  204 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIEP----IVMSAGELESENAGEPGKLIRQRY------------------REAA  204 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCCe----EEEEHHHhhcCcCCcHHHHHHHHH------------------HHHH
Confidence            478899999999999999999999876542    222221111 11111112222211                  1111


Q ss_pred             HHH--hcCceEEEEcCCCCH------------HHH--HHHhcCCC--------------CCCCCcEEEEEcCCHhHHhh-
Q 038919          244 RRL--RQKKVLLVIDDVAHV------------EQL--RRLAGKRD--------------WFGPGSRIIITTRDEHLLKL-  292 (483)
Q Consensus       244 ~~l--~~~~~LlVlDdv~~~------------~~~--~~l~~~~~--------------~~~~~~~iliTtR~~~~~~~-  292 (483)
                      +..  ++++++|+||+++..            .++  ..|+..+.              ....+..||+||.++..+.. 
T Consensus       205 ~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpA  284 (413)
T PLN00020        205 DIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAP  284 (413)
T ss_pred             HHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHh
Confidence            111  468999999998521            111  23332111              12456778888876643221 


Q ss_pred             ----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH
Q 038919          293 ----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL  343 (483)
Q Consensus       293 ----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  343 (483)
                          ...+..|  ..-+.++-.++++.+..... .+   .....++++...|-|+
T Consensus       285 LlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~~-l~---~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        285 LIRDGRMEKFY--WAPTREDRIGVVHGIFRDDG-VS---REDVVKLVDTFPGQPL  333 (413)
T ss_pred             HcCCCCCCcee--CCCCHHHHHHHHHHHhccCC-CC---HHHHHHHHHcCCCCCc
Confidence                1122233  34556666777766553322 22   2445667777777664

>PRK10536 hypothetical protein; Provisional

Probab=97.83  E-value=9.1e-05  Score=67.81  Aligned_cols=139  Identities=10%  Similarity=0.115  Sum_probs=75.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH-h-hcccceeEEEEecccccc----cCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL-I-SHEFDGSSFLADVKEKYD----KEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~-~-~~~f~~~~~~~~~~~~~~----~~~~~~~l  216 (483)
                      ..+.+|......+..++..    ...+.++|++|+|||+||.+++.. + ...|...+.....-...+    -++...+-
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK  130 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEK  130 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHH
Confidence            4577888888888887763    249999999999999999998874 3 344443333221111111    11111111


Q ss_pred             HHHHHHHHhcccCC--CccchhhhHH--------HHHHHHhcCc---eEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEE
Q 038919          217 QKQLISDLLKLADN--SIRNVYDGIN--------MIGRRLRQKK---VLLVIDDVA--HVEQLRRLAGKRDWFGPGSRII  281 (483)
Q Consensus       217 ~~~ll~~~~~~~~~--~~~~~~~~~~--------~l~~~l~~~~---~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~il  281 (483)
                      ..-.+..+...-..  ..........        .-..++++++   .+||+|.+.  +..++..++..+   +.++++|
T Consensus       131 ~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR~---g~~sk~v  207 (262)
T PRK10536        131 FAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTRL---GENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhhc---CCCCEEE
Confidence            11111111100000  0000000000        0123456654   499999996  457777777554   7899999


Q ss_pred             EEcCCHh
Q 038919          282 ITTRDEH  288 (483)
Q Consensus       282 iTtR~~~  288 (483)
                      +|--..+
T Consensus       208 ~~GD~~Q  214 (262)
T PRK10536        208 VNGDITQ  214 (262)
T ss_pred             EeCChhh
Confidence            9877543

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=0.00029  Score=65.49  Aligned_cols=80  Identities=23%  Similarity=0.304  Sum_probs=48.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh----cccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS----HEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~----~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      -+++.++||||.|||+|++++++++.    +.|..+..+.    ...     ..++.+    ....   .........+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----ins-----hsLFSK----WFsE---SgKlV~kmF~k  240 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----INS-----HSLFSK----WFSE---SGKLVAKMFQK  240 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----Eeh-----hHHHHH----HHhh---hhhHHHHHHHH
Confidence            47899999999999999999999653    4455554443    111     222222    2221   12233444455


Q ss_pred             HHHHHhcCc--eEEEEcCCCCH
Q 038919          242 IGRRLRQKK--VLLVIDDVAHV  261 (483)
Q Consensus       242 l~~~l~~~~--~LlVlDdv~~~  261 (483)
                      +.+.+.++.  +++.+|.|++.
T Consensus       241 I~ELv~d~~~lVfvLIDEVESL  262 (423)
T KOG0744|consen  241 IQELVEDRGNLVFVLIDEVESL  262 (423)
T ss_pred             HHHHHhCCCcEEEEEeHHHHHH
Confidence            666666554  56778999654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.80  E-value=0.003  Score=60.72  Aligned_cols=174  Identities=12%  Similarity=0.082  Sum_probs=94.3

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHH------hc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDL------LK  226 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~------~~  226 (483)
                      +.+.+.+..+ .-.....++|+.|+||+++|..++..+--.-+..         ...-+. ....+.+....      ..
T Consensus        12 ~~l~~~~~~~-rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~---------~~~Cg~-C~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871         12 QQITQAFQQG-LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQG---------DQPCGQ-CHSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHcC-CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC---------CCCCCC-CHHHHHHhcCCCCCEEEEc
Confidence            4455555532 1246788999999999999999998653211000         000000 00001110000      00


Q ss_pred             ccCCCccchhhhHHHHHHHHh-----cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcc
Q 038919          227 LADNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEE  297 (483)
Q Consensus       227 ~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~  297 (483)
                      ......-.+++. ..+.+.+.     ++.=++|+|+++.  ......|+..+..-.+++.+|++|.++ .+++. .....
T Consensus        81 p~~~~~I~id~i-R~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         81 PIDNKDIGVDQV-REINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             cccCCCCCHHHH-HHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhce
Confidence            000000111111 11222222     4455888999974  355666666665546677777777665 33333 23456


Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      .+.+.+++.++..+.+.....   . .   ...+..++..++|.|+-.
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~---~-~---~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSS---A-E---ISEILTALRINYGRPLLA  200 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhc---c-C---hHHHHHHHHHcCCCHHHH
Confidence            799999999999999987641   1 1   122556788899999633

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.80  E-value=0.002  Score=62.52  Aligned_cols=91  Identities=12%  Similarity=0.038  Sum_probs=60.7

Q ss_pred             cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          248 QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       248 ~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      +++=++|+|+++.  .+.-..|+..+..-.+++.+|++|.++. +++. ....+.+.+.+++.+++.+.+.....   . 
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~~---~-  182 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREVT---M-  182 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHccC---C-
Confidence            4556899999974  4556666665554466777777766543 4433 33445789999999999998865421   1 


Q ss_pred             CchHHHHHHHHHHHhCCChHHH
Q 038919          324 REEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      +   .+.+..++..++|.|...
T Consensus       183 ~---~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        183 S---QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             C---HHHHHHHHHHcCCCHHHH
Confidence            1   133667889999999643

>TIGR00767 rho transcription termination factor Rho

Probab=97.79  E-value=9e-05  Score=72.11  Aligned_cols=94  Identities=16%  Similarity=0.156  Sum_probs=58.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchh-hh----
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVY-DG----  238 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~-~~----  238 (483)
                      ..+.++|+|++|+|||||+..+++.+... |+..+|+..+.+..  .. +.++++.++..+............ ..    
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~--~E-VtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERP--EE-VTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCC--cc-HHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            35789999999999999999999987665 88788877543321  12 266666664443322221111111 11    


Q ss_pred             HHHHHHH-HhcCceEEEEcCCCCH
Q 038919          239 INMIGRR-LRQKKVLLVIDDVAHV  261 (483)
Q Consensus       239 ~~~l~~~-l~~~~~LlVlDdv~~~  261 (483)
                      .+..... -.+++++|++|++...
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhHH
Confidence            1111122 2479999999999654

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

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.75  E-value=0.00075  Score=63.40  Aligned_cols=36  Identities=28%  Similarity=0.257  Sum_probs=26.2

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++.+..++..+    +.+.|.|++|+|||+||+.+++...
T Consensus        11 ~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~~lg   46 (262)
T TIGR02640        11 TSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVARKRD   46 (262)
T ss_pred             HHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            34444444432    4577999999999999999998553

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).

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

Probab=97.75  E-value=0.0033  Score=61.17  Aligned_cols=77  Identities=16%  Similarity=0.182  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHhhcCC-CCcEEEEEeCCCCCChhHHHHHHHHHhhcc--cceeEEEEecccccccCCcHHHHHHHHHHHH
Q 038919          148 IESRLEKLKFLMGAGC-NDVRMIGIWGMGGLGKTTLARVVYDLISHE--FDGSSFLADVKEKYDKEGSVISLQKQLISDL  224 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~  224 (483)
                      |+...+.|.+.+...+ ..+.+|+|.|.=|+|||++...+.+.+...  ....+...+.........+...++..+...+
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            3455667777777543 567899999999999999999999988776  2334444455555444445456665555443

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 [].

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.00068  Score=68.22  Aligned_cols=172  Identities=16%  Similarity=0.207  Sum_probs=95.3

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .++=|.+..+.+|.+++..          +-..++=|.+||++|+|||.||.+++.++.-.|     +. +   +.    
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf-----~~-i---sA----  256 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF-----LS-I---SA----  256 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce-----Ee-e---cc----
Confidence            6788999999998886643          112356699999999999999999999765432     11 1   00    


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCC------
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDW------  273 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~------  273 (483)
                           .++.+.+.+      .+.....+.+.+.....|+++++|+++..             ..+..|+..+..      
T Consensus       257 -----peivSGvSG------ESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~  325 (802)
T KOG0733|consen  257 -----PEIVSGVSG------ESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKT  325 (802)
T ss_pred             -----hhhhcccCc------ccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhccccccc
Confidence                 011222111      12223333444455678999999999632             112233333221      


Q ss_pred             CCCCcEEEE-EcCCHhHHhh----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          274 FGPGSRIII-TTRDEHLLKL----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       274 ~~~~~~ili-TtR~~~~~~~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                      .+.+..||- |+|...+-..    ...++.+.+.--+..+-.+++...+-+-....+ +  ..++|++.+-|.
T Consensus       326 ~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~-~--d~~qlA~lTPGf  395 (802)
T KOG0733|consen  326 KGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGD-F--DFKQLAKLTPGF  395 (802)
T ss_pred             CCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCC-c--CHHHHHhcCCCc
Confidence            123333343 4443322211    234456778777777777777665543332221 1  145566666665

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.72  E-value=0.0013  Score=71.93  Aligned_cols=50  Identities=18%  Similarity=0.321  Sum_probs=38.8

Q ss_pred             HhhhchhHHHHHHHHHhhcC------CCC-cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAG------CND-VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|.+.-++.+...+...      .+. ...+.++|++|+|||+||+.+++.+..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~  624 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFD  624 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhc
Confidence            56889999999888876531      111 247889999999999999999987643

>PRK08181 transposase; Validated

Probab=97.71  E-value=0.00021  Score=66.90  Aligned_cols=34  Identities=21%  Similarity=0.111  Sum_probs=27.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .-+.|+|++|+|||.||..+++........+.|+
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

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.0056  Score=59.31  Aligned_cols=90  Identities=18%  Similarity=0.193  Sum_probs=58.9

Q ss_pred             CceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCC
Q 038919          249 KKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPR  324 (483)
Q Consensus       249 ~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  324 (483)
                      +.=++|+|+++.  .+....|+..+..-.+++.+|++|.++ .+++. ......+.+.+++.++..+.+....    .+.
T Consensus       132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~----~~~  207 (342)
T PRK06964        132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG----VAD  207 (342)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC----CCh
Confidence            445888999974  466666766665546677666666554 44433 3344679999999999999997652    111


Q ss_pred             chHHHHHHHHHHHhCCChHHHHHH
Q 038919          325 EEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       325 ~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                            ...+...++|.|+....+
T Consensus       208 ------~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        208 ------ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ------HHHHHHHcCCCHHHHHHH
Confidence                  123567789999755433

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.70  E-value=0.0006  Score=69.34  Aligned_cols=172  Identities=15%  Similarity=0.222  Sum_probs=95.9

Q ss_pred             hhhchhHHHHHHHHHhh-----------cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          144 ELVGIESRLEKLKFLMG-----------AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~-----------~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ++=|.++...+|++...           .+-..++-|.++|+||+|||++|+++++.-.-.|-.   +   .      + 
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFls---v---k------g-  501 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLS---V---K------G-  501 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeee---c---c------C-
Confidence            34446665555654332           133456789999999999999999999976655421   1   0      1 


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH-------------HHHHHhcCCCCCCCCcE
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE-------------QLRRLAGKRDWFGPGSR  279 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~~~~~~~~~~  279 (483)
                       .    ++++...+..      .....+...+.-+-.+++|.||.++...             .+..++..++-......
T Consensus       502 -p----EL~sk~vGeS------Er~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~  570 (693)
T KOG0730|consen  502 -P----ELFSKYVGES------ERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKN  570 (693)
T ss_pred             -H----HHHHHhcCch------HHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCc
Confidence             1    2222222221      1111222233334567999999986432             24455555443333333


Q ss_pred             EEE---EcCCHhH----HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          280 III---TTRDEHL----LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       280 ili---TtR~~~~----~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      |+|   |.|...+    +.....++.+.++.-+.+.-.++|+.++-+-...+.   -...+|++.+.|.-
T Consensus       571 V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~---vdl~~La~~T~g~S  637 (693)
T KOG0730|consen  571 VLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSED---VDLEELAQATEGYS  637 (693)
T ss_pred             EEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHhccCC
Confidence            333   4443322    222235678889988888889999988854433322   12455666666654

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

Probab=97.68  E-value=0.0012  Score=71.38  Aligned_cols=49  Identities=22%  Similarity=0.320  Sum_probs=38.4

Q ss_pred             HhhhchhHHHHHHHHHhhcC------CCC-cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAG------CND-VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|-+..++.+.+.+...      .+. ..++.++|++|+|||+||+.+++.+.
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            67889998888888876531      112 34688999999999999999999773

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.68  E-value=0.00017  Score=66.13  Aligned_cols=48  Identities=21%  Similarity=0.274  Sum_probs=36.0

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|.++|..+-....++.|+|++|+|||+||.+++.........++|+.
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            355556544444679999999999999999999987765555566664

>PRK09183 transposase/IS protein; Provisional

Probab=97.66  E-value=0.00022  Score=66.66  Aligned_cols=27  Identities=30%  Similarity=0.262  Sum_probs=23.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+.|+|++|+|||+||..++......
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~  129 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRA  129 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            568899999999999999998875544

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

Probab=97.66  E-value=0.0018  Score=65.51  Aligned_cols=190  Identities=16%  Similarity=0.183  Sum_probs=108.8

Q ss_pred             HHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc----cc-e-eEEEEecccccccCCcHH
Q 038919          141 ILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE----FD-G-SSFLADVKEKYDKEGSVI  214 (483)
Q Consensus       141 ~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----f~-~-~~~~~~~~~~~~~~~~~~  214 (483)
                      ..+++||-+.....|...+..+. -......+|+-|+||||+|+-++..+--.    .. + .|..+  ... ..... .
T Consensus        14 ~F~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~C--k~I-~~g~~-~   88 (515)
T COG2812          14 TFDDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISC--KEI-NEGSL-I   88 (515)
T ss_pred             cHHHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhh--Hhh-hcCCc-c
Confidence            34678999999999999988542 24567889999999999999999854211    11 0 01100  000 00000 0


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHHH-HhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HH
Q 038919          215 SLQKQLISDLLKLADNSIRNVYDGINMIGRR-LRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LL  290 (483)
Q Consensus       215 ~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~  290 (483)
                      ++.+     +-.......++..+..+.+.-. ..++.=+.|+|.|+.  ...+..|+..+..-.++..+|+.|.+++ +.
T Consensus        89 DviE-----iDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip  163 (515)
T COG2812          89 DVIE-----IDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIP  163 (515)
T ss_pred             cchh-----hhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCc
Confidence            1000     0001111112221111111111 123455899999974  4678888887776566777777776653 22


Q ss_pred             -hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          291 -KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       291 -~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       ......+.|.+..++.++-...+...+......  ...+...-|.+..+|-.
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~--~e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN--IEEDALSLIARAAEGSL  214 (515)
T ss_pred             hhhhhccccccccCCCHHHHHHHHHHHHHhcCCc--cCHHHHHHHHHHcCCCh
Confidence             223445679999999999999988877544322  22345555666666643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.65  E-value=0.0014  Score=71.93  Aligned_cols=50  Identities=22%  Similarity=0.347  Sum_probs=40.0

Q ss_pred             HhhhchhHHHHHHHHHhhcC------CCC-cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAG------CND-VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|.+..++.+...+...      .+. ...+.++|++|+|||++|+.++..+..
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~  621 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD  621 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            67899999999999877642      111 357889999999999999999987644

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.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.65  E-value=0.0057  Score=58.79  Aligned_cols=48  Identities=17%  Similarity=0.053  Sum_probs=34.2

Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCC-chHHHHHHHHHHHhCCChHHH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPR-EEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal  345 (483)
                      +++|++++.+|+..++....-.+-... ...+...+++.-.++|||.-+
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            789999999999999987764433222 233455666777779999755

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).

>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=97.63  E-value=0.0002  Score=63.73  Aligned_cols=131  Identities=18%  Similarity=0.170  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh--hcccceeEEEEecccccccCCcHHHH-HHHH---HH
Q 038919          149 ESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI--SHEFDGSSFLADVKEKYDKEGSVISL-QKQL---IS  222 (483)
Q Consensus       149 ~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~--~~~f~~~~~~~~~~~~~~~~~~~~~l-~~~l---l~  222 (483)
                      ..+-....+.|.    ...++.+.|++|+|||.||.+.+-+.  ...|...++....-+.....+++..- -+++   +.
T Consensus         6 ~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~   81 (205)
T PF02562_consen    6 NEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLR   81 (205)
T ss_dssp             SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTH
T ss_pred             CHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHH
Confidence            333444444444    23589999999999999998887543  34566666654333222222221111 1111   00


Q ss_pred             H---HhcccCCCccchhhhHHH------HHHHHhc---CceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          223 D---LLKLADNSIRNVYDGINM------IGRRLRQ---KKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       223 ~---~~~~~~~~~~~~~~~~~~------l~~~l~~---~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .   .+.... ...........      -..++++   ...+||+|++.  +..+++.++...   +.+|++|++--..
T Consensus        82 p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~---g~~skii~~GD~~  156 (205)
T PF02562_consen   82 PIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTRI---GEGSKIIITGDPS  156 (205)
T ss_dssp             HHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB----TT-EEEEEE---
T ss_pred             HHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHccc---CCCcEEEEecCce
Confidence            0   000000 00111110000      0012334   35799999995  457888887664   7899999987744

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.63  E-value=0.00018  Score=69.45  Aligned_cols=35  Identities=17%  Similarity=0.214  Sum_probs=28.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..+.++|++|+|||.||.++++.+......++|+.
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            56999999999999999999998876544455554

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

Probab=97.63  E-value=0.0026  Score=57.47  Aligned_cols=172  Identities=18%  Similarity=0.238  Sum_probs=99.7

Q ss_pred             HhhhchhHHHHH---HHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEK---LKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~---l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      ++.||.+.-...   +.+.|..    +.-.++-|..+|++|.|||.+|+++++.....|    .....            
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~----l~vka------------  184 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL----LLVKA------------  184 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce----EEech------------
Confidence            678888765443   4455554    223478899999999999999999998654322    11100            


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--------------HHHHHHhcCCCCC--CCCcE
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--------------EQLRRLAGKRDWF--GPGSR  279 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--------------~~~~~l~~~~~~~--~~~~~  279 (483)
                        .+++....+.      ......+...+.-...+|++.+|.++..              +.+.+|+..+...  +.|..
T Consensus       185 --t~liGehVGd------gar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         185 --TELIGEHVGD------GARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             --HHHHHHHhhh------HHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence              1122111111      1122222333333467999999988532              3455666555422  45666


Q ss_pred             EEEEcCCHhHHhhC---CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          280 IIITTRDEHLLKLH---RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       280 iliTtR~~~~~~~~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                      .|-.|.++..+...   .....++..--+.+|-..++...+-.-..+-+   .-.+.++..++|.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~---~~~~~~~~~t~g~  318 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD---ADLRYLAAKTKGM  318 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc---cCHHHHHHHhCCC
Confidence            67667666554321   22345777777888989998888744333221   1155666777775

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

Probab=97.63  E-value=0.00069  Score=69.65  Aligned_cols=159  Identities=18%  Similarity=0.210  Sum_probs=89.6

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      .+-+|.+..-+++.+.|.-    ..-..++++++||||+|||+|++.+++.+...|-.    ..+++..+...       
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR----~sLGGvrDEAE-------  391 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVR----ISLGGVRDEAE-------  391 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEE----EecCccccHHH-------
Confidence            4568998888888887753    22346899999999999999999999988776522    11222222111       


Q ss_pred             HHHHHHhcccCCCccchh-hhHHHHHHHHhcCceEEEEcCCCCH------HHHHHHhcCCCC-----C--------CCCc
Q 038919          219 QLISDLLKLADNSIRNVY-DGINMIGRRLRQKKVLLVIDDVAHV------EQLRRLAGKRDW-----F--------GPGS  278 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~LlVlDdv~~~------~~~~~l~~~~~~-----~--------~~~~  278 (483)
                           +-+....-..... ..++.+++ ..-++-+++||.++..      +--.+++..++.     |        -.=|
T Consensus       392 -----IRGHRRTYIGamPGrIiQ~mkk-a~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS  465 (782)
T COG0466         392 -----IRGHRRTYIGAMPGKIIQGMKK-AGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLS  465 (782)
T ss_pred             -----hccccccccccCChHHHHHHHH-hCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchh
Confidence                 1111111111111 11222222 2345668899998532      112222222210     0        0113


Q ss_pred             E-EEEEcCCH-h--HHhhCCCcceEecCCCChHHHHHHHHHhhc
Q 038919          279 R-IIITTRDE-H--LLKLHRVEEVFKLEALTYDEAFQLFCLKAF  318 (483)
Q Consensus       279 ~-iliTtR~~-~--~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~  318 (483)
                      . +.|+|-|. .  ..+......++++.+.+.+|-.++-.+++.
T Consensus       466 ~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         466 KVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             heEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            3 34455442 2  123345667899999999999998887763

>PRK06526 transposase; Provisional

Probab=97.63  E-value=0.00013  Score=67.84  Aligned_cols=27  Identities=26%  Similarity=0.140  Sum_probs=23.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +-+.|+|++|+|||+||..++......
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~  125 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQA  125 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence            568999999999999999999876654

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.00074  Score=67.97  Aligned_cols=128  Identities=17%  Similarity=0.260  Sum_probs=79.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHH-HHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINM-IGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~~  244 (483)
                      +.=|.+||++|+|||-||+++++.-...|     +. +      .+  .    +++....+.       .+..+.. +++
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NF-----is-V------KG--P----ELlNkYVGE-------SErAVR~vFqR  599 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANF-----IS-V------KG--P----ELLNKYVGE-------SERAVRQVFQR  599 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCce-----Ee-e------cC--H----HHHHHHhhh-------HHHHHHHHHHH
Confidence            44588999999999999999999766654     21 1      11  1    233333222       1222222 333


Q ss_pred             HHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCC--CCCcEEEEEcCCHhH-----HhhCCCcceEecCCC
Q 038919          245 RLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWF--GPGSRIIITTRDEHL-----LKLHRVEEVFKLEAL  304 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~--~~~~~iliTtR~~~~-----~~~~~~~~~~~l~~L  304 (483)
                      .-...|++|.||.++..             ..+..|+..+.-.  -.|.-||-.|..+++     +.....+..+-|+.-
T Consensus       600 AR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  600 ARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             hhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCC
Confidence            33468999999999543             2355565554422  235555655544433     333345667888989


Q ss_pred             ChHHHHHHHHHhhc
Q 038919          305 TYDEAFQLFCLKAF  318 (483)
Q Consensus       305 ~~~ea~~L~~~~~~  318 (483)
                      +.+|-.+++....-
T Consensus       680 n~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  680 NAEERVAILKTITK  693 (802)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999988775

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.60  E-value=0.0019  Score=60.58  Aligned_cols=173  Identities=18%  Similarity=0.215  Sum_probs=99.4

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccccc-CCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDK-EGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~l~~~  219 (483)
                      ..++|-..+-..+..++..  -.+....+.|.||.|.|||+|......+ .+.+.-....+.+.+.... .-.+..+..+
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            3688888888888888764  1123457899999999999999877766 4445555555545433222 1112333344


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHh------cCceEEEEcCCCCH------HHHHHHhcCCC-CCCCCcEEEEEcCC
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLR------QKKVLLVIDDVAHV------EQLRRLAGKRD-WFGPGSRIIITTRD  286 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~------~~~~LlVlDdv~~~------~~~~~l~~~~~-~~~~~~~iliTtR~  286 (483)
                      +..++... .....+..+....+...+.      +.++++|+|.+|--      ..+-.++.... ...|-|-|-+|||-
T Consensus       103 l~~e~~~~-~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  103 LALELNRI-VKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHhhh-heeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            33332221 1122233333444444443      34689999988532      11222322211 12456677789995


Q ss_pred             H-------hHHhhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          287 E-------HLLKLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       287 ~-------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      .       .|-.......++-+++++.++-.++++...
T Consensus       182 d~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  182 DILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            4       222223333456678899999999998876

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.0016  Score=66.77  Aligned_cols=159  Identities=17%  Similarity=0.158  Sum_probs=83.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+.|.|.|+.|+|||+|++++++.+...-.+.+-+.++..... . .+..+++.+                  ...+-..
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~-~-~~e~iQk~l------------------~~vfse~  490 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDG-S-SLEKIQKFL------------------NNVFSEA  490 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccc-h-hHHHHHHHH------------------HHHHHHH
Confidence            4679999999999999999999988755444333333322111 1 112222221                  1223445


Q ss_pred             HhcCceEEEEcCCCCHH---------------HHHHHhc-CCCC-CCCCc--EEEEEcCCHhHH-----hhCCCcceEec
Q 038919          246 LRQKKVLLVIDDVAHVE---------------QLRRLAG-KRDW-FGPGS--RIIITTRDEHLL-----KLHRVEEVFKL  301 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~---------------~~~~l~~-~~~~-~~~~~--~iliTtR~~~~~-----~~~~~~~~~~l  301 (483)
                      +...|-+|||||++...               -+..++. .... ...+.  .+|.|.....-.     ...-......|
T Consensus       491 ~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L  570 (952)
T KOG0735|consen  491 LWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIAL  570 (952)
T ss_pred             HhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEec
Confidence            66789999999995321               1111211 0000 02233  345555433221     11223346788


Q ss_pred             CCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHH
Q 038919          302 EALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALK  346 (483)
Q Consensus       302 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~  346 (483)
                      +++...+-.++++.......  .....+...-+..+|+|. |.-+.
T Consensus       571 ~ap~~~~R~~IL~~~~s~~~--~~~~~~dLd~ls~~TEGy~~~DL~  614 (952)
T KOG0735|consen  571 PAPAVTRRKEILTTIFSKNL--SDITMDDLDFLSVKTEGYLATDLV  614 (952)
T ss_pred             CCcchhHHHHHHHHHHHhhh--hhhhhHHHHHHHHhcCCccchhHH
Confidence            99998888887766543222  111222233366677665 33333

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.00076  Score=71.06  Aligned_cols=119  Identities=18%  Similarity=0.255  Sum_probs=74.0

Q ss_pred             HhhhchhHHHHHHHHHhhc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEKLKFLMGA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      ...+|-+.-+..+.+.+..       .+.....+...||.|+|||.||++++..+-..=.. ..-.+.++..        
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~a-liR~DMSEy~--------  561 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQA-LIRIDMSEYM--------  561 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCcc-ceeechHHHH--------
Confidence            6789999999999887653       22235678889999999999999999976533222 2222232221        


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCce-EEEEcCCC--CHHHHHHHhcCCCC
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKV-LLVIDDVA--HVEQLRRLAGKRDW  273 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~--~~~~~~~l~~~~~~  273 (483)
                       -+.-.+.+.+..+... ..++ --.+-+..+++|+ +|.||+++  +++.+.-|+..+..
T Consensus       562 -EkHsVSrLIGaPPGYV-Gyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         562 -EKHSVSRLIGAPPGYV-GYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             -HHHHHHHHhCCCCCCc-eecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence             1223344444332221 1111 2234556677776 88899996  66777777766653

>TIGR00763 lon ATP-dependent protease La

Probab=97.58  E-value=0.00099  Score=72.40  Aligned_cols=52  Identities=19%  Similarity=0.380  Sum_probs=40.0

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ...+|.+...+.+.+++..    .....+++.++|++|+|||++|+.+++.+...|
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            4578988888888775542    222346899999999999999999999876543

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.

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

Probab=97.58  E-value=0.00088  Score=68.64  Aligned_cols=159  Identities=18%  Similarity=0.216  Sum_probs=87.2

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      .+-+|++...+++.+.+.-    ++.+.++++.+|++|+|||++|+.++..+...|    |-..+++..+....      
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF----fRfSvGG~tDvAeI------  480 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF----FRFSVGGMTDVAEI------  480 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce----EEEeccccccHHhh------
Confidence            4568998888888887643    344578999999999999999999999877664    22333333222111      


Q ss_pred             HHHHHHhcccCCCccch-hhhHHHHHHHHhcCceEEEEcCCCCH---------HHHHHHhc---------CCCCC-CCCc
Q 038919          219 QLISDLLKLADNSIRNV-YDGINMIGRRLRQKKVLLVIDDVAHV---------EQLRRLAG---------KRDWF-GPGS  278 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~~LlVlDdv~~~---------~~~~~l~~---------~~~~~-~~~~  278 (483)
                            -+......... ...++.++. ..-.+-|+.||.|+..         ..+-.++.         ...+. -.=|
T Consensus       481 ------kGHRRTYVGAMPGkiIq~LK~-v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLS  553 (906)
T KOG2004|consen  481 ------KGHRRTYVGAMPGKIIQCLKK-VKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLS  553 (906)
T ss_pred             ------cccceeeeccCChHHHHHHHh-hCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchh
Confidence                  11111111111 111222222 2234558888988533         11211111         11000 1125


Q ss_pred             EEEE-EcCCH-hH--HhhCCCcceEecCCCChHHHHHHHHHhhc
Q 038919          279 RIII-TTRDE-HL--LKLHRVEEVFKLEALTYDEAFQLFCLKAF  318 (483)
Q Consensus       279 ~ili-TtR~~-~~--~~~~~~~~~~~l~~L~~~ea~~L~~~~~~  318 (483)
                      +|++ .|-|. +.  .+......+++|.+...+|-+.+-.+++.
T Consensus       554 kVLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  554 KVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             heEEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhh
Confidence            5543 33221 11  12234557899999999999988877763

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.56  E-value=0.00097  Score=72.77  Aligned_cols=50  Identities=20%  Similarity=0.296  Sum_probs=39.3

Q ss_pred             HhhhchhHHHHHHHHHhhc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|-+.-++.+.+.+..       .+....++.++|++|+|||.||+.+++.+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            6789999999998887642       1122457899999999999999999987643

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.

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.0021  Score=67.37  Aligned_cols=177  Identities=17%  Similarity=0.260  Sum_probs=103.0

Q ss_pred             HhhhchhHHHHHHH---HHhhc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLK---FLMGA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~---~~L~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .++.|.++..++|.   +.|.+       +..-++=+.|+|++|+|||-||++++-.-.=     -|+. ++.       
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgV-----PF~s-vSG-------  377 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGV-----PFFS-VSG-------  377 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCC-----ceee-ech-------
Confidence            67888886555554   45543       1122566899999999999999999974322     2222 110       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-----------------HHHHHHhcCCCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-----------------EQLRRLAGKRDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----------------~~~~~l~~~~~~~~  275 (483)
                       .    ++..-+.+...      ...-+.....-.+.|+++.+|+++..                 ..+..++..++-+.
T Consensus       378 -S----EFvE~~~g~~a------srvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  378 -S----EFVEMFVGVGA------SRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             -H----HHHHHhcccch------HHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence             1    11111111110      11111122222467899999988432                 23556665555444


Q ss_pred             CCc--EEEEEcCCHhHH-----hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          276 PGS--RIIITTRDEHLL-----KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       276 ~~~--~iliTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      .+.  .+|-+|...+++     .....++.+.++.-+...-.++|.-++...... .+..++++ ++..+-|++=|.
T Consensus       447 ~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  447 TSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            333  333355544332     223456678899889999999999888554443 34456666 999999998554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.55  E-value=0.0006  Score=61.14  Aligned_cols=110  Identities=17%  Similarity=0.193  Sum_probs=65.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE-ecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA-DVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .++.|+|++|+||||++..++..+.......++.. +..+.. ....         ..+..... ...+.......++..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~-~~~~---------~~~i~q~~-vg~~~~~~~~~i~~a   70 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFV-HESK---------RSLINQRE-VGLDTLSFENALKAA   70 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCcccc-ccCc---------cceeeecc-cCCCccCHHHHHHHH
Confidence            47899999999999999998887765444343332 111100 0000         00000000 011223345667788


Q ss_pred             HhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          246 LRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      ++..+=++++|++.+.+.+...+...   ..|..++.|+......
T Consensus        71 Lr~~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          71 LRQDPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAA  112 (198)
T ss_pred             hcCCcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHH
Confidence            88888899999998887766654432   2455677777765443

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.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.54  E-value=0.00086  Score=57.96  Aligned_cols=133  Identities=20%  Similarity=0.176  Sum_probs=70.6

Q ss_pred             chhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc--------------------cceeEEEEecccc
Q 038919          147 GIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE--------------------FDGSSFLADVKEK  206 (483)
Q Consensus       147 GR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--------------------f~~~~~~~~~~~~  206 (483)
                      |-+...+.|.+.+..+ .-+..+.++|+.|+||+++|..+++.+-..                    ++...++. ....
T Consensus         1 gq~~~~~~L~~~~~~~-~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~-~~~~   78 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIK-PDKK   78 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEE-TTTS
T ss_pred             CcHHHHHHHHHHHHcC-CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEe-cccc
Confidence            4456677777777643 225678999999999999999999865322                    11112221 0000


Q ss_pred             cccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcE
Q 038919          207 YDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSR  279 (483)
Q Consensus       207 ~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~  279 (483)
                      .                       ..-..++.. .+...+     .+..=++|+||++.  .+....|+..+.....++.
T Consensus        79 ~-----------------------~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~  134 (162)
T PF13177_consen   79 K-----------------------KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTY  134 (162)
T ss_dssp             S-----------------------SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEE
T ss_pred             c-----------------------chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEE
Confidence            0                       001111111 222222     13455899999974  4555566555544467888


Q ss_pred             EEEEcCCHhH-Hh-hCCCcceEecCCCC
Q 038919          280 IIITTRDEHL-LK-LHRVEEVFKLEALT  305 (483)
Q Consensus       280 iliTtR~~~~-~~-~~~~~~~~~l~~L~  305 (483)
                      +|++|.+..- ++ .......+.+.+|+
T Consensus       135 fiL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  135 FILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             EEEEECChHHChHHHHhhceEEecCCCC
Confidence            8888887642 22 22344567777664

...

>PRK04132 replication factor C small subunit; Provisional

Probab=97.54  E-value=0.0088  Score=64.49  Aligned_cols=154  Identities=12%  Similarity=0.133  Sum_probs=91.4

Q ss_pred             EeC--CCCCChhHHHHHHHHHhh-cccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh
Q 038919          171 IWG--MGGLGKTTLARVVYDLIS-HEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR  247 (483)
Q Consensus       171 I~G--~~GiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~  247 (483)
                      +.|  |.++||||+|..+++.+- +.+...+.-.|.+..   .+  ....++++..........               .
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~---rg--id~IR~iIk~~a~~~~~~---------------~  628 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDE---RG--INVIREKVKEFARTKPIG---------------G  628 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCc---cc--HHHHHHHHHHHHhcCCcC---------------C
Confidence            347  889999999999999862 223333333333221   11  223333333322111100               1


Q ss_pred             cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCC
Q 038919          248 QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKP  323 (483)
Q Consensus       248 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  323 (483)
                      .+.-++|||+++..  ++...|+..+......+++|+++.+.. +... ......+++.+++.++-...+...+......
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  455666655554456777777666543 2222 2345689999999999988887765432211


Q ss_pred             CchHHHHHHHHHHHhCCChHHHH
Q 038919          324 REEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       324 ~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                        ...+....|+..++|.+....
T Consensus       709 --i~~e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        709 --LTEEGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             --CCHHHHHHHHHHcCCCHHHHH
Confidence              224578889999999985443

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.54  E-value=0.0017  Score=67.33  Aligned_cols=47  Identities=30%  Similarity=0.482  Sum_probs=38.2

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.+..++.+...+...  ....+.|+|++|+|||++|+.+++..
T Consensus        64 f~~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            367999999999998876533  33567899999999999999998643

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.

>PRK09354 recA recombinase A; Provisional

Probab=97.53  E-value=0.00036  Score=67.21  Aligned_cols=97  Identities=26%  Similarity=0.335  Sum_probs=56.9

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH---HHHHhcccC
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL---ISDLLKLAD  229 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l---l~~~~~~~~  229 (483)
                      .|..+|. .+=+..+++-|+|++|+||||||.+++......-..++|+. .....+     ....+.+   +..+.   .
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId-~E~s~~-----~~~a~~lGvdld~ll---i  117 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID-AEHALD-----PVYAKKLGVDIDNLL---V  117 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC-CccchH-----HHHHHHcCCCHHHeE---E
Confidence            4555565 44445689999999999999999999887766555556654 222111     1111221   11111   1


Q ss_pred             CCccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          230 NSIRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       230 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      ..+.+.++....+...++ +..-+||+|.+.
T Consensus       118 ~qp~~~Eq~l~i~~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        118 SQPDTGEQALEIADTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             ecCCCHHHHHHHHHHHhhcCCCCEEEEeChh
Confidence            123344555555555554 356799999984

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

Probab=97.52  E-value=0.0015  Score=70.00  Aligned_cols=49  Identities=18%  Similarity=0.203  Sum_probs=38.6

Q ss_pred             HhhhchhHHHHHHHHHhhcC-------CCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAG-------CNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|-+..++.|...+...       ......+.++|++|+|||+||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999888876531       11235789999999999999999998773

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.0037  Score=60.44  Aligned_cols=86  Identities=14%  Similarity=0.139  Sum_probs=49.8

Q ss_pred             ceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcceEecCCCChHHHHHHHHHhhccCCCCCc
Q 038919          250 KVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEEVFKLEALTYDEAFQLFCLKAFETQKPRE  325 (483)
Q Consensus       250 ~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~  325 (483)
                      +-++|+|+++  +......++..+.....++.+|++|.+.. +... ......+.+.+++.+++.+.+....    . ..
T Consensus       114 ~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~-~~  188 (325)
T PRK08699        114 LRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----V-AE  188 (325)
T ss_pred             ceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----C-Cc
Confidence            3355668885  33444444443333245676777777654 3322 2234578999999999999986642    1 11


Q ss_pred             hHHHHHHHHHHHhCCChHHH
Q 038919          326 EYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       326 ~~~~~~~~i~~~~~G~PLal  345 (483)
                      . .    ..+..++|.|+..
T Consensus       189 ~-~----~~l~~~~g~p~~~  203 (325)
T PRK08699        189 P-E----ERLAFHSGAPLFD  203 (325)
T ss_pred             H-H----HHHHHhCCChhhh
Confidence            1 1    1235688999643

>PRK06921 hypothetical protein; Provisional

Probab=97.52  E-value=0.00074  Score=63.36  Aligned_cols=36  Identities=19%  Similarity=0.207  Sum_probs=28.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      ...+.++|.+|+|||.||.++++.+... ...++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            4678999999999999999999987765 34445544

>cd01394 radB RadB

Probab=97.52  E-value=0.00044  Score=63.12  Aligned_cols=49  Identities=20%  Similarity=0.302  Sum_probs=35.8

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..|..+|..+-....++.|+|.+|+||||||.+++......-..++|+.
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            3455566544445689999999999999999999988765544455553

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

>TIGR02012 tigrfam_recA protein RecA

Probab=97.52  E-value=0.00047  Score=65.86  Aligned_cols=97  Identities=25%  Similarity=0.335  Sum_probs=55.5

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH---HHHHhcccC
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL---ISDLLKLAD  229 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l---l~~~~~~~~  229 (483)
                      .|..+|. .+=+..+++.|+|++|+||||||.+++......-..++|+. ..+..+     ....+.+   +..+.   .
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId-~E~~~~-----~~~a~~lGvd~~~l~---v  112 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID-AEHALD-----PVYARKLGVDIDNLL---V  112 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc-ccchhH-----HHHHHHcCCCHHHeE---E
Confidence            3445554 34445689999999999999999998887765544455553 222111     1111111   11111   1


Q ss_pred             CCccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          230 NSIRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       230 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      ..+.+.++....+...++ +..-+||+|.+.
T Consensus       113 ~~p~~~eq~l~~~~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       113 SQPDTGEQALEIAETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             ecCCCHHHHHHHHHHHhhccCCcEEEEcchh
Confidence            122344555555555554 456799999984

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.50  E-value=0.00024  Score=64.34  Aligned_cols=44  Identities=20%  Similarity=0.360  Sum_probs=33.5

Q ss_pred             HhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          158 LMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       158 ~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +|..+-....++.|+|++|+|||+|+.+++.........++|+.
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34444344689999999999999999999987765555566665

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

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

Probab=97.49  E-value=0.00036  Score=69.16  Aligned_cols=47  Identities=28%  Similarity=0.304  Sum_probs=39.6

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++++.+..++.+...|...    +.+.++|++|+|||++|+.+++.+..
T Consensus       174 l~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            467888899999998888743    46888999999999999999988753

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.49  E-value=0.002  Score=70.58  Aligned_cols=132  Identities=18%  Similarity=0.200  Sum_probs=72.4

Q ss_pred             HhhhchhHHHHHHHHHhhcC------CCC-cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG------CND-VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      ..++|-+.-++.+...+...      .+. ...+.++|++|+|||+||+.+++.+-..-. .+...+.++.......   
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~-~~~~~d~s~~~~~~~~---  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSED-AMIRLDMSEYMEKHTV---  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCcc-ceEEEEchhccccccH---
Confidence            67899999999998876521      111 346789999999999999999987643212 2222333322221111   


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCc-eEEEEcCCC--CHHHHHHHhcCCCCC-----------CCCcEEE
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKK-VLLVIDDVA--HVEQLRRLAGKRDWF-----------GPGSRII  281 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~LlVlDdv~--~~~~~~~l~~~~~~~-----------~~~~~il  281 (483)
                            ..+.+... ......+ ...+.+.++.++ .+++||+++  +++....|+..+...           ..++.+|
T Consensus       585 ------~~l~g~~~-gyvg~~~-~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I  656 (821)
T CHL00095        585 ------SKLIGSPP-GYVGYNE-GGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLII  656 (821)
T ss_pred             ------HHhcCCCC-cccCcCc-cchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEE
Confidence                  11122111 1111111 112344455554 589999996  445566665544321           1345566


Q ss_pred             EEcCC
Q 038919          282 ITTRD  286 (483)
Q Consensus       282 iTtR~  286 (483)
                      +||..
T Consensus       657 ~Tsn~  661 (821)
T CHL00095        657 MTSNL  661 (821)
T ss_pred             EeCCc
Confidence            77663

>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=97.46  E-value=0.00065  Score=61.95  Aligned_cols=35  Identities=31%  Similarity=0.441  Sum_probs=29.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      -.++|.|.+|+|||+|+..+.......|...+.+.
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            36889999999999999999999999996655543

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

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.45  E-value=0.00067  Score=65.69  Aligned_cols=103  Identities=13%  Similarity=0.127  Sum_probs=56.7

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccccee-EEEEecccccccCCcHHHHHHHHHHHHhcccCCCcc
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGS-SFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIR  233 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~  233 (483)
                      +.+.+..- +..+.+.|+|++|+|||||++.+++.+....+.. +++..+.+...   -+.++...+...+.........
T Consensus       123 vID~l~Pi-GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~---EV~df~~~i~~~Vvast~de~~  198 (380)
T PRK12608        123 VVDLVAPI-GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPE---EVTDMRRSVKGEVYASTFDRPP  198 (380)
T ss_pred             hhhheeec-CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCC---CHHHHHHHHhhhEEeecCCCCH
Confidence            45554431 2346779999999999999999999887654333 34443433322   2255555555433222111111


Q ss_pred             chh-h---hHHHHHHHH--hcCceEEEEcCCCCH
Q 038919          234 NVY-D---GINMIGRRL--RQKKVLLVIDDVAHV  261 (483)
Q Consensus       234 ~~~-~---~~~~l~~~l--~~~~~LlVlDdv~~~  261 (483)
                      ... .   ....+.+++  .+++++||+|++...
T Consensus       199 ~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        199 DEHIRVAELVLERAKRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHH
Confidence            110 1   111112222  379999999999543

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.45  E-value=0.00071  Score=58.30  Aligned_cols=34  Identities=29%  Similarity=0.307  Sum_probs=26.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ++.|+|++|+|||+++..++......-...+|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3689999999999999999988766444444443

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.45  E-value=0.00098  Score=62.05  Aligned_cols=36  Identities=22%  Similarity=0.198  Sum_probs=27.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...-+.++|.+|+|||.||.++++.+...-..+.|+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~  139 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFI  139 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEE
Confidence            345689999999999999999999988432333333

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.44  E-value=0.0014  Score=63.78  Aligned_cols=48  Identities=21%  Similarity=0.170  Sum_probs=36.7

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ++|-+.....+..+..........+.++|++|+||||+|..+++.+..
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~   50 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLC   50 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhC
Confidence            466667777777776643333456999999999999999999997653

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.44  E-value=0.00021  Score=62.71  Aligned_cols=36  Identities=22%  Similarity=0.221  Sum_probs=26.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..-+.|+|++|+|||.||..+++.....-..+.|+.
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            356999999999999999999987766444445543

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.

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

Probab=97.44  E-value=0.0014  Score=60.19  Aligned_cols=41  Identities=29%  Similarity=0.258  Sum_probs=30.6

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .|.++|..+-....++.|+|++|+|||+||.+++.......
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~   47 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPG   47 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhccc
Confidence            34455554444467999999999999999999987765443

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=97.43  E-value=0.0011  Score=62.16  Aligned_cols=103  Identities=17%  Similarity=0.097  Sum_probs=61.3

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      .++.+..++...   ..++.|.|+.|+||||++..+...+...-...+.+.+..+..- .+.            .... .
T Consensus        68 ~~~~l~~~~~~~---~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~-~~~------------~q~~-v  130 (264)
T cd01129          68 NLEIFRKLLEKP---HGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI-PGI------------NQVQ-V  130 (264)
T ss_pred             HHHHHHHHHhcC---CCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC-CCc------------eEEE-e
Confidence            444555555422   3589999999999999999988876542223333332221110 000            0000 0


Q ss_pred             CccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          231 SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      ....-......++..++..+-.|+++++.+.+....++..
T Consensus       131 ~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         131 NEKAGLTFARGLRAILRQDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             CCcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHH
Confidence            0111123456678888899999999999998876655544

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.42  E-value=0.00091  Score=58.77  Aligned_cols=37  Identities=30%  Similarity=0.548  Sum_probs=31.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+|.|.|++|+||||+|+.++.++...+...+++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            3468999999999999999999999887766666653

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.41  E-value=0.0058  Score=64.90  Aligned_cols=172  Identities=16%  Similarity=0.197  Sum_probs=92.6

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..+.|.+...+++.+.+..          +..-.+-+.|+|++|+|||++|+.++......|    +..+..        
T Consensus       152 ~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f----~~is~~--------  219 (644)
T PRK10733        152 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF----FTISGS--------  219 (644)
T ss_pred             HHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCE----EEEehH--------
Confidence            5677777666666554321          001134489999999999999999988664432    221111        


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF--  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--  274 (483)
                        .+..    ...+.      ........+.......+++|+||+++..                ..+..++..+..+  
T Consensus       220 --~~~~----~~~g~------~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~  287 (644)
T PRK10733        220 --DFVE----MFVGV------GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  287 (644)
T ss_pred             --HhHH----hhhcc------cHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC
Confidence              1110    00010      1111122233333467899999999654                1233443333322  


Q ss_pred             CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          275 GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                      ..+..+|.||..++.+..     ...+..+.++..+.++-.+++..+........+.   ....+++.+.|.
T Consensus       288 ~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~---d~~~la~~t~G~  356 (644)
T PRK10733        288 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI---DAAIIARGTPGF  356 (644)
T ss_pred             CCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcC---CHHHHHhhCCCC
Confidence            234455557765543221     2345678899999988889988877543322111   123455556553

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.40  E-value=0.0014  Score=60.45  Aligned_cols=48  Identities=21%  Similarity=0.144  Sum_probs=33.9

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|.+.|..+-....++.|+|.+|+|||+|+.+++......-..++|+.
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            345555544445689999999999999999999776444434455554

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

Probab=97.40  E-value=0.00096  Score=62.08  Aligned_cols=42  Identities=33%  Similarity=0.491  Sum_probs=35.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEK  206 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~  206 (483)
                      ..+.++|.|.+|+|||+|+..+++....+|...+++..+.+.
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer  109 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGER  109 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccC
Confidence            347899999999999999999999998788777777655544

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.

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.39  E-value=0.0079  Score=61.86  Aligned_cols=198  Identities=11%  Similarity=0.092  Sum_probs=119.6

Q ss_pred             HhhhchhHHHHHHHHHhhc--CC-CCcEEEEEeCCCCCChhHHHHHHHHHhhc-----ccceeEEEE-ecccccccCCcH
Q 038919          143 KELVGIESRLEKLKFLMGA--GC-NDVRMIGIWGMGGLGKTTLARVVYDLISH-----EFDGSSFLA-DVKEKYDKEGSV  213 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-----~f~~~~~~~-~~~~~~~~~~~~  213 (483)
                      ..+-+|+.+..+|...+..  .. .....+-|.|.+|+|||..+..+.+.+..     .-+...|+. |.-..   .. .
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l---~~-~  471 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRL---AS-P  471 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceee---cC-H
Confidence            4688999999999987754  22 33568999999999999999999986541     122222221 11111   12 2


Q ss_pred             HHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh-----cCceEEEEcCCCCH-----HHHHHHhcCCCCCCCCcEEEEE
Q 038919          214 ISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAHV-----EQLRRLAGKRDWFGPGSRIIIT  283 (483)
Q Consensus       214 ~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~iliT  283 (483)
                      .++...+...+.+.    ........+.+..++.     .+++++++|+++..     +.+..|+....  .++++++|.
T Consensus       472 ~~~Y~~I~~~lsg~----~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt--~~~sKLvvi  545 (767)
T KOG1514|consen  472 REIYEKIWEALSGE----RVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPT--LKNSKLVVI  545 (767)
T ss_pred             HHHHHHHHHhcccC----cccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCc--CCCCceEEE
Confidence            66666666665433    2334445555555554     46789999999643     45555554432  467776653


Q ss_pred             cC-CH-----h-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCC-CchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          284 TR-DE-----H-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKP-REEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       284 tR-~~-----~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~-~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      += +.     .     +...+ ..+.+.+.|.+..+-.+++..++.+...- ....+=+++.|+...|..-.|+...-+.
T Consensus       546 ~IaNTmdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA  624 (767)
T KOG1514|consen  546 AIANTMDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRA  624 (767)
T ss_pred             EecccccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            32 11     1     11111 23457889999999999998877554222 2233345566777777766666655443

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.00058  Score=71.89  Aligned_cols=152  Identities=15%  Similarity=0.193  Sum_probs=90.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cce-----eEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDG-----SSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~-----~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++.+||+.|++++.+.|.....+.  -.++|.+|+|||+++.-++.++... .|.     .++-.++.            
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNN--PvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g------------  235 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNN--PVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG------------  235 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCC--CeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH------------
Confidence            789999999999999998643322  3578999999999999999987543 111     11111111            


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh-cCceEEEEcCCCCH-----------HHHHHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR-QKKVLLVIDDVAHV-----------EQLRRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~iliTt  284 (483)
                            . +........+.++.+..+.+.+. ..+++|++|.+...           +.-.-+.+.+.. +.--.|-.||
T Consensus       236 ------~-LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR-GeL~~IGATT  307 (786)
T COG0542         236 ------S-LVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR-GELRCIGATT  307 (786)
T ss_pred             ------H-HhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc-CCeEEEEecc
Confidence                  1 11112223445555555555554 44899999998422           222333333321 2222344566


Q ss_pred             CCHhH--H----hhCCCcceEecCCCChHHHHHHHHHh
Q 038919          285 RDEHL--L----KLHRVEEVFKLEALTYDEAFQLFCLK  316 (483)
Q Consensus       285 R~~~~--~----~~~~~~~~~~l~~L~~~ea~~L~~~~  316 (483)
                      -++.-  .    ......+.+.|...+.+++..+++..
T Consensus       308 ~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         308 LDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             HHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            54321  1    11124567889999999999998644

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.38  E-value=0.00019  Score=69.16  Aligned_cols=50  Identities=16%  Similarity=0.306  Sum_probs=41.9

Q ss_pred             HhhhchhHHHHHHHHHhhcC----CCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAG----CNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+++|.++.++++.+++...    ....++++|+|++|+||||||..+++.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            37999999999999888652    224688999999999999999999987754

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

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.37  E-value=0.00069  Score=57.72  Aligned_cols=116  Identities=17%  Similarity=0.213  Sum_probs=61.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHH--hcccCC---Cccch------
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDL--LKLADN---SIRNV------  235 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~--~~~~~~---~~~~~------  235 (483)
                      ..|-|++..|.||||+|...+-+...+-..+.++.-+... ...+- ...++.+ ..+  ......   ...+.      
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-LKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCC-CccCH-HHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            4678888889999999999988776654445554433321 11122 2222222 000  000000   00111      


Q ss_pred             -hhhHHHHHHHHhc-CceEEEEcCCC--------CHHHHHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          236 -YDGINMIGRRLRQ-KKVLLVIDDVA--------HVEQLRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       236 -~~~~~~l~~~l~~-~~~LlVlDdv~--------~~~~~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                       .......++.+.. .-=|||||++.        +.+.+-.++...   .++..+|+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~r---p~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAK---PEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcC---CCCCEEEEECCCCC
Confidence             1122233344443 44599999983        334444454432   56789999999753

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.

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

Probab=97.37  E-value=0.0008  Score=64.38  Aligned_cols=97  Identities=26%  Similarity=0.322  Sum_probs=55.3

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHH---HHHHhcccC
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQL---ISDLLKLAD  229 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l---l~~~~~~~~  229 (483)
                      .|..+|. .+=+..+++-|+|++|+||||||.+++......-..++|+. ..+..+     ....+.+   +..+.   -
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId-~E~~~~-----~~~a~~lGvd~~~l~---v  112 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID-AEHALD-----PVYAKKLGVDLDNLL---I  112 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC-ccccHH-----HHHHHHcCCCHHHhe---e
Confidence            3445554 33344689999999999999999999887665545555554 222111     1111111   11111   1


Q ss_pred             CCccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          230 NSIRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       230 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      ..+.+.++....+...++ +..-+||+|.+.
T Consensus       113 ~~p~~~eq~l~i~~~li~s~~~~lIVIDSva  143 (325)
T cd00983         113 SQPDTGEQALEIADSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             cCCCCHHHHHHHHHHHHhccCCCEEEEcchH
Confidence            122344555555555544 456799999873

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=97.37  E-value=0.0041  Score=67.24  Aligned_cols=51  Identities=16%  Similarity=0.265  Sum_probs=41.1

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.+|.+...+.+.+++..    ......++.++|++|+||||+++.++..+...
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~  376 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRK  376 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            5689999999999887763    12235689999999999999999999876544

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.36  E-value=0.0017  Score=62.19  Aligned_cols=36  Identities=22%  Similarity=0.316  Sum_probs=28.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .+-+.|+|..|+|||.||.++++.+...-..+.|+.
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~  191 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH  191 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            456899999999999999999998875544444443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.35  E-value=0.0021  Score=59.39  Aligned_cols=49  Identities=12%  Similarity=0.116  Sum_probs=35.3

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..|.++|..+=....++.|.|++|+|||+||.+++......-..++|+.
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            3455566555455689999999999999999998876544445556654

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.34  E-value=0.0018  Score=66.39  Aligned_cols=52  Identities=25%  Similarity=0.392  Sum_probs=40.7

Q ss_pred             HHHHhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          140 EILKELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       140 ~~i~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .-+.+++--.+-++++..||..   +....+++.++||+|+||||.++.+++.+.
T Consensus        16 ~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg   70 (519)
T PF03215_consen   16 KTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG   70 (519)
T ss_pred             CCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3345666667788899999875   233367999999999999999999998763

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.34  E-value=0.00063  Score=62.90  Aligned_cols=37  Identities=30%  Similarity=0.398  Sum_probs=28.1

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|..+|..+-....++.|+|++|+|||+|+.+++...
T Consensus         7 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~   43 (235)
T cd01123           7 ALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             hhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHe
Confidence            3445555444456899999999999999999998654

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 .

>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=97.33  E-value=0.00018  Score=58.91  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +|+|.|++|+||||+|+.+++++
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            58999999999999999999976

...

>PRK04296 thymidine kinase; Provisional

Probab=97.27  E-value=0.0013  Score=58.57  Aligned_cols=110  Identities=20%  Similarity=0.132  Sum_probs=60.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC--CccchhhhHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN--SIRNVYDGINMIGR  244 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~--~~~~~~~~~~~l~~  244 (483)
                      .++.|+|++|.||||++..++.+...+...++++. .. .....+. ..    +...+ +....  ......+....+.+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k-~~-~d~~~~~-~~----i~~~l-g~~~~~~~~~~~~~~~~~~~~   74 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK-PA-IDDRYGE-GK----VVSRI-GLSREAIPVSSDTDIFELIEE   74 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe-cc-ccccccC-Cc----EecCC-CCcccceEeCChHHHHHHHHh
Confidence            57889999999999999999998866544434332 10 0001111 11    11111 11000  11223333333433


Q ss_pred             HHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          245 RLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                       ..++.-+||+|.+.-  .+++..+...+.  ..|..|++|.++.
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             234556999999953  344555544422  4688899999974

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.27  E-value=0.01  Score=57.69  Aligned_cols=47  Identities=19%  Similarity=0.133  Sum_probs=37.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..++|+...+..+.+.+..-......|.|+|.+|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            45889998888888876653333456899999999999999988753

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.27  E-value=0.003  Score=62.75  Aligned_cols=151  Identities=19%  Similarity=0.212  Sum_probs=79.5

Q ss_pred             HhhhchhH---HHHHHHHHhhcCC------CC-cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIES---RLEKLKFLMGAGC------ND-VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~---~l~~l~~~L~~~~------~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+.-|.++   |++++.+.|....      ++ ++=|.++|++|.|||-||++++-...-    -+|+...++.      
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~V----PFF~~sGSEF------  373 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGV----PFFYASGSEF------  373 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCC----CeEeccccch------
Confidence            45667765   5666666776421      11 556899999999999999999874322    2333211110      


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCCCCCcE
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWFGPGSR  279 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~~~~~~  279 (483)
                       .+++       .+.      ......+.....-.+-|++|.+|.++..             ..+..++..++-+.++.-
T Consensus       374 -dEm~-------VGv------GArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeG  439 (752)
T KOG0734|consen  374 -DEMF-------VGV------GARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEG  439 (752)
T ss_pred             -hhhh-------hcc------cHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCc
Confidence             1100       000      1111112223333467999999998533             335666666655554433


Q ss_pred             EEE--EcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          280 III--TTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       280 ili--TtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      |||  .|.-++.+.     ....+..+.|+.-+-.--.++|..+.
T Consensus       440 iIvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl  484 (752)
T KOG0734|consen  440 IIVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYL  484 (752)
T ss_pred             eEEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHH
Confidence            333  343332221     12234456666655555555555554

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.27  E-value=0.00033  Score=58.52  Aligned_cols=38  Identities=26%  Similarity=0.329  Sum_probs=29.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc-ccee-EEEEecc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE-FDGS-SFLADVK  204 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~-~~~~~~~  204 (483)
                      --++|+|++|+||||++..+++.++.. |..+ ++...++
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR   45 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVR   45 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeee
Confidence            458999999999999999999988776 6544 3333343

>PRK06696 uridine kinase; Validated

Probab=97.25  E-value=0.00074  Score=61.84  Aligned_cols=46  Identities=20%  Similarity=0.164  Sum_probs=36.7

Q ss_pred             hhHHHHHHHHHhhc-CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          148 IESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       148 R~~~l~~l~~~L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      |...+++|.+.+.. ..+.+.+|+|.|.+|+||||||..+++.+...
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            56677777776643 34467899999999999999999999987644

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.25  E-value=0.0087  Score=58.66  Aligned_cols=150  Identities=15%  Similarity=0.115  Sum_probs=80.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .|=..++||||.|||++..++++.+.-    .++-..+......    .+ ++.++..                      
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~y----dIydLeLt~v~~n----~d-Lr~LL~~----------------------  283 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLNY----DIYDLELTEVKLD----SD-LRHLLLA----------------------  283 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcCC----ceEEeeeccccCc----HH-HHHHHHh----------------------
Confidence            355889999999999999999996542    2443333222211    11 2222222                      


Q ss_pred             HhcCceEEEEcCCCCHH--------------------HHHHHhcCC---CCCCCCcEE-EEEcCCHhH-----HhhCCCc
Q 038919          246 LRQKKVLLVIDDVAHVE--------------------QLRRLAGKR---DWFGPGSRI-IITTRDEHL-----LKLHRVE  296 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~--------------------~~~~l~~~~---~~~~~~~~i-liTtR~~~~-----~~~~~~~  296 (483)
                       ...+-+||+.|++..-                    .+.-|+..+   ...+.+-|| ++||-..+-     +.....+
T Consensus       284 -t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmD  362 (457)
T KOG0743|consen  284 -TPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMD  362 (457)
T ss_pred             -CCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcce
Confidence             1334577777774220                    122233222   222323455 457764432     2222233


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                      -.+.+.-=+.+.-..|+........ +.    .++.+|.+...+.-+.=.+++..|
T Consensus       363 mhI~mgyCtf~~fK~La~nYL~~~~-~h----~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  363 MHIYMGYCTFEAFKTLASNYLGIEE-DH----RLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             eEEEcCCCCHHHHHHHHHHhcCCCC-Cc----chhHHHHHHhhcCccCHHHHHHHH
Confidence            4567788888888888888775433 22    345666665566554444555444

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.24  E-value=0.0041  Score=55.67  Aligned_cols=54  Identities=22%  Similarity=0.321  Sum_probs=41.8

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccce
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG  196 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~  196 (483)
                      ..++|.+...+.|.+-...  ..-...-|.+||.-|+|||+|++++.+.+......
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            6799999998888763321  11224568999999999999999999998877654

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

Probab=97.22  E-value=0.00083  Score=62.66  Aligned_cols=37  Identities=30%  Similarity=0.340  Sum_probs=27.4

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.++|..+-....+.-|+|++|+|||+|+.+++-..
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~   62 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNV   62 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHh
Confidence            4555665333335689999999999999999887543

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 ....

>PRK04328 hypothetical protein; Provisional

Probab=97.20  E-value=0.0018  Score=60.28  Aligned_cols=48  Identities=13%  Similarity=0.110  Sum_probs=34.0

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|.++|..+=....++.|.|++|+|||+|+.+++......-..++|+.
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            445555544344679999999999999999998876544444555554

>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=97.20  E-value=0.0011  Score=59.03  Aligned_cols=28  Identities=25%  Similarity=0.339  Sum_probs=24.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++++.++|+.|+||||.+..++.++..+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~   28 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK   28 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc
Confidence            4789999999999999999999887766

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 ....

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.013  Score=54.19  Aligned_cols=172  Identities=20%  Similarity=0.182  Sum_probs=92.5

Q ss_pred             HhhhchhHHHHHHHHHhh----------cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMG----------AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~----------~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ....|.+.-.+.|.+..-          .....-+-|.++|++|.|||-||++++.....-    +|-+  +   .    
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST----FFSv--S---S----  199 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST----FFSV--S---S----  199 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc----eEEe--e---h----
Confidence            567888888888877532          122235679999999999999999999754432    2221  1   1    


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh-cCceEEEEcCCCCH---------HHHHH----HhcC---CCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR-QKKVLLVIDDVAHV---------EQLRR----LAGK---RDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~---------~~~~~----l~~~---~~~~~  275 (483)
                       ..    +.+..++.       .+.++..+.+..+ +++.+|.+|.++..         +..+.    |+-.   .....
T Consensus       200 -SD----LvSKWmGE-------SEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~  267 (439)
T KOG0739|consen  200 -SD----LVSKWMGE-------SEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDN  267 (439)
T ss_pred             -HH----HHHHHhcc-------HHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCC
Confidence             12    22222222       2334444444443 78999999999643         22221    2111   11123


Q ss_pred             CCcEEEEEcCCHhHHhhC---CCcceEecCCCChHHH-HHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          276 PGSRIIITTRDEHLLKLH---RVEEVFKLEALTYDEA-FQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~~~---~~~~~~~l~~L~~~ea-~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .|..||-.|.-+-++...   .....+-+ ||....| ..+|.-+++...  ....++-.+++..++.|..
T Consensus       268 ~gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp--~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  268 DGVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTP--HVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             CceEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCCCc--cccchhhHHHHHhhcCCCC
Confidence            455556566655443321   12223334 3444444 566766665432  2233344666777777753

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.18  E-value=0.062  Score=55.68  Aligned_cols=49  Identities=22%  Similarity=0.283  Sum_probs=40.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|....++++.+.+..-......|.|+|..|+|||++|+.+.+.-.
T Consensus       187 ~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        187 GEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             CceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            4689999999888887765444456799999999999999999988543

>PRK07667 uridine kinase; Provisional

Probab=97.18  E-value=0.001  Score=59.45  Aligned_cols=42  Identities=24%  Similarity=0.297  Sum_probs=32.5

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++.+.+.+....+...+|+|.|.+|+||||+|..+...+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            344555555544556899999999999999999999987654

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=97.18  E-value=0.021  Score=51.37  Aligned_cols=146  Identities=18%  Similarity=0.344  Sum_probs=83.3

Q ss_pred             hhhc-hhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          144 ELVG-IESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       144 ~~vG-R~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      .+|| .+.+++++.+.+..           +-..+.-+.++|++|.|||-||+++++..      .||+..+++      
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht------~c~firvsg------  214 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT------DCTFIRVSG------  214 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc------ceEEEEech------
Confidence            4554 46677777665432           11235668999999999999999999832      244444443      


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH----HhcCceEEEEcCCCCH-------------H---HHHHHhcCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRR----LRQKKVLLVIDDVAHV-------------E---QLRRLAGKR  271 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~-------------~---~~~~l~~~~  271 (483)
                        ..+.+..+    +..          ...+++.    -.+.+.+|..|.+++.             +   ..-.++..+
T Consensus       215 --selvqk~i----geg----------srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnql  278 (404)
T KOG0728|consen  215 --SELVQKYI----GEG----------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQL  278 (404)
T ss_pred             --HHHHHHHh----hhh----------HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhc
Confidence              23333222    111          1112221    1356889999988543             1   122333333


Q ss_pred             CCC--CCCcEEEEEcCCHhH-----HhhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          272 DWF--GPGSRIIITTRDEHL-----LKLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       272 ~~~--~~~~~iliTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+  ..+.+||..|..-++     +.....++.++.++-+.+.-.+++.-+.
T Consensus       279 dgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  279 DGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHS  331 (404)
T ss_pred             cccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhh
Confidence            322  456778876654333     3333455678888888887777776554

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.18  E-value=0.0087  Score=58.41  Aligned_cols=29  Identities=28%  Similarity=0.314  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++++++|+|++|+||||++..++..+...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~  268 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGK  268 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            35799999999999999999999877644

>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=97.18  E-value=0.00047  Score=58.48  Aligned_cols=36  Identities=31%  Similarity=0.220  Sum_probs=29.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..+|.|+|.+|+||||||+++.+++........++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            368999999999999999999999988766555553

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 ....

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.005  Score=55.37  Aligned_cols=150  Identities=18%  Similarity=0.308  Sum_probs=79.9

Q ss_pred             hhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          144 ELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      +.=|.+-+.+++.+....           +-+.++-|.++|++|+|||.||+++++.....|     +..++        
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f-----irvvg--------  222 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF-----IRVVG--------  222 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe-----eeecc--------
Confidence            455666666666654422           224467799999999999999999999765544     22111        


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH----------------HHHHHhcCCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE----------------QLRRLAGKRDWF--  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~~--  274 (483)
                       .    ++....++.+.....      ..++-.-.+.+.+|.+|.++...                .+-.++.....+  
T Consensus       223 -s----efvqkylgegprmvr------dvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq  291 (408)
T KOG0727|consen  223 -S----EFVQKYLGEGPRMVR------DVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQ  291 (408)
T ss_pred             -H----HHHHHHhccCcHHHH------HHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCc
Confidence             1    122233333221111      11222224678899999885431                122333333333  


Q ss_pred             CCCcEEEEEcCC-----HhHHhhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          275 GPGSRIIITTRD-----EHLLKLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       275 ~~~~~iliTtR~-----~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      +.+.+||..|..     +.++.....++.++.+--+..+-.-.|....
T Consensus       292 ~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~tit  339 (408)
T KOG0727|consen  292 TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTIT  339 (408)
T ss_pred             ccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhh
Confidence            346677775542     2223223344556666445555555554443

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.14  E-value=0.00034  Score=58.79  Aligned_cols=46  Identities=24%  Similarity=0.273  Sum_probs=32.0

Q ss_pred             hchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          146 VGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       146 vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ||....++++.+.+..-......|.|+|.+|+||+++|+.++..-.
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~   46 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG   46 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC
Confidence            5666777777776654223345689999999999999998887533

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.12  E-value=0.0012  Score=64.44  Aligned_cols=108  Identities=18%  Similarity=0.201  Sum_probs=63.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE-ecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA-DVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+.|+|++|+||||+...+...+.......++.. +..+.         .... ...+...... ..+.......++.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~---------~~~~-~~~~i~q~ev-g~~~~~~~~~l~~  190 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEY---------VHRN-KRSLINQREV-GLDTLSFANALRA  190 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhh---------hccC-ccceEEcccc-CCCCcCHHHHHHH
Confidence            368999999999999999999887765444444432 11110         0000 0000000010 1112335566788


Q ss_pred             HHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          245 RLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .++..+=.|++|.+.+.+.....+...   ..|..++.|....
T Consensus       191 ~lr~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~  230 (343)
T TIGR01420       191 ALREDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTN  230 (343)
T ss_pred             hhccCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCC
Confidence            889999999999999887766544432   3455566666543

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.10  E-value=0.0039  Score=56.25  Aligned_cols=27  Identities=33%  Similarity=0.242  Sum_probs=23.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +...+.|+|.+|+||||||..+++++.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            445789999999999999999999764

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.10  E-value=0.02  Score=55.29  Aligned_cols=57  Identities=18%  Similarity=0.059  Sum_probs=37.5

Q ss_pred             cceEecCCCChHHHHHHHHHhhccCCCCCc-hHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          296 EEVFKLEALTYDEAFQLFCLKAFETQKPRE-EYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       296 ~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~-~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                      ..++++++.+.+|+.++........-...+ ..++.-+++.-..+|||--++-++.++
T Consensus       403 f~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  403 FVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             cCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHHHHhc
Confidence            346889999999999988655422111100 013456778888899997777666654

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

Probab=97.10  E-value=0.0045  Score=52.69  Aligned_cols=25  Identities=32%  Similarity=0.533  Sum_probs=22.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ++.|+|.+|+||||||+.+...+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999997753

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.10  E-value=0.003  Score=62.12  Aligned_cols=49  Identities=27%  Similarity=0.303  Sum_probs=34.9

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .++.+.|..+-....++.|.|.+|+|||||+.+++.........++|+.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3445555543334579999999999999999999988766544445553

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.08  E-value=0.012  Score=57.12  Aligned_cols=46  Identities=22%  Similarity=0.132  Sum_probs=34.3

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +||....++++.+.+..-......|.|+|.+|+||+++|+.+.+.-
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            4677777777776665433334568999999999999999887643

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

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.06  E-value=0.0056  Score=53.48  Aligned_cols=34  Identities=26%  Similarity=0.425  Sum_probs=26.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+++|.|+.|.|||||.+.++..... ..+.+++
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~~~-~~G~i~~   61 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLYDP-TSGEILI   61 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCCC-CCCEEEE
Confidence            468999999999999999999876543 3444444

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.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.05  E-value=0.056  Score=56.45  Aligned_cols=120  Identities=21%  Similarity=0.261  Sum_probs=65.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH-HHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMI-GRR  245 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l-~~~  245 (483)
                      .=|.+||++|.|||-||++++....-.|     +. +      .++  +    ++.-..+..       ++-+..+ .+.
T Consensus       706 SGILLYGPPGTGKTLlAKAVATEcsL~F-----lS-V------KGP--E----LLNMYVGqS-------E~NVR~VFerA  760 (953)
T KOG0736|consen  706 SGILLYGPPGTGKTLLAKAVATECSLNF-----LS-V------KGP--E----LLNMYVGQS-------EENVREVFERA  760 (953)
T ss_pred             ceeEEECCCCCchHHHHHHHHhhceeeE-----Ee-e------cCH--H----HHHHHhcch-------HHHHHHHHHHh
Confidence            3488999999999999999998654332     21 1      222  2    233322221       2222223 333


Q ss_pred             HhcCceEEEEcCCCCH---------------HHHHHHhcCCCC----CCCCcEEEEEcCCHhH-----HhhCCCcceEec
Q 038919          246 LRQKKVLLVIDDVAHV---------------EQLRRLAGKRDW----FGPGSRIIITTRDEHL-----LKLHRVEEVFKL  301 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~---------------~~~~~l~~~~~~----~~~~~~iliTtR~~~~-----~~~~~~~~~~~l  301 (483)
                      -..+||+|.||.+++.               ..+..++..++.    ...+.-||-.|..+++     +.....+..+.|
T Consensus       761 R~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyv  840 (953)
T KOG0736|consen  761 RSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYV  840 (953)
T ss_pred             hccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcCCCccceeEEe
Confidence            3468999999999654               123333333322    2234445544443333     233345566778


Q ss_pred             CCCChHHHHH
Q 038919          302 EALTYDEAFQ  311 (483)
Q Consensus       302 ~~L~~~ea~~  311 (483)
                      ++=+.+++..
T Consensus       841 G~~~d~esk~  850 (953)
T KOG0736|consen  841 GPNEDAESKL  850 (953)
T ss_pred             cCCccHHHHH
Confidence            7766666543

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.04  E-value=0.0017  Score=56.34  Aligned_cols=21  Identities=24%  Similarity=0.162  Sum_probs=19.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.|.|.+|+|||++|.+++..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            679999999999999999875

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.04  E-value=0.0041  Score=55.61  Aligned_cols=119  Identities=18%  Similarity=0.221  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      +.+.+...+..   +.+++.|.|++|+|||+++..+...+...- ..+.+....         ......+.... +.   
T Consensus         6 Q~~a~~~~l~~---~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT---------~~Aa~~L~~~~-~~---   68 (196)
T PF13604_consen    6 QREAVRAILTS---GDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPT---------NKAAKELREKT-GI---   68 (196)
T ss_dssp             HHHHHHHHHHC---TCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESS---------HHHHHHHHHHH-TS---
T ss_pred             HHHHHHHHHhc---CCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCc---------HHHHHHHHHhh-Cc---
Confidence            44455555553   236899999999999999999888776653 333333111         12222222221 10   


Q ss_pred             CccchhhhHHHHHHHH------hcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          231 SIRNVYDGINMIGRRL------RQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l------~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                      ...++..........-      ..+.-+||+|++.  +...+..++....  ..++++|+.--..+
T Consensus        69 ~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD~~Q  132 (196)
T PF13604_consen   69 EAQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGDPNQ  132 (196)
T ss_dssp             -EEEHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-TTS
T ss_pred             chhhHHHHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECCcch
Confidence            0111100000000000      1234599999995  4456777666544  35778887765443

>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=97.03  E-value=0.0038  Score=52.78  Aligned_cols=100  Identities=19%  Similarity=0.253  Sum_probs=55.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ..+++|.|+.|.|||||++.++..... ..+.+++......    ..+.+                ...-....-.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~~~~~i----~~~~~----------------lS~G~~~rv~lara   84 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWGSTVKI----GYFEQ----------------LSGGEKMRLALAKL   84 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCC-CceEEEECCeEEE----EEEcc----------------CCHHHHHHHHHHHH
Confidence            468999999999999999999875443 3444544321000    00000                11111222234445


Q ss_pred             HhcCceEEEEcCCC---CH---HHHHHHhcCCCCCCCCcEEEEEcCCHhHHh
Q 038919          246 LRQKKVLLVIDDVA---HV---EQLRRLAGKRDWFGPGSRIIITTRDEHLLK  291 (483)
Q Consensus       246 l~~~~~LlVlDdv~---~~---~~~~~l~~~~~~~~~~~~iliTtR~~~~~~  291 (483)
                      +..++-++++|+..   |.   ..+..++..+     +..||++|.+.....
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~-----~~til~~th~~~~~~  131 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY-----PGTVILVSHDRYFLD  131 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc-----CCEEEEEECCHHHHH
Confidence            56677799999873   33   3333333322     246888888765543

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.

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

Probab=97.03  E-value=0.0025  Score=59.63  Aligned_cols=98  Identities=26%  Similarity=0.217  Sum_probs=59.3

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHH-HhcccCCCcc
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISD-LLKLADNSIR  233 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~-~~~~~~~~~~  233 (483)
                      |..+|..+-...+++-|+|+.|+||||+|.+++-.....-...+|+..-      ..+-.....++... +.......+.
T Consensus        49 LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE------~~l~p~r~~~l~~~~~d~l~v~~~~  122 (279)
T COG0468          49 LDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTE------HALDPERAKQLGVDLLDNLLVSQPD  122 (279)
T ss_pred             HHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCC------CCCCHHHHHHHHHhhhcceeEecCC
Confidence            3444444444578999999999999999999888777666667777522      11224444555554 2222223334


Q ss_pred             chhhhHHHHHHHH---hcCceEEEEcCC
Q 038919          234 NVYDGINMIGRRL---RQKKVLLVIDDV  258 (483)
Q Consensus       234 ~~~~~~~~l~~~l---~~~~~LlVlDdv  258 (483)
                      +.++....+....   ..+--|+|+|.+
T Consensus       123 ~~e~q~~i~~~~~~~~~~~i~LvVVDSv  150 (279)
T COG0468         123 TGEQQLEIAEKLARSGAEKIDLLVVDSV  150 (279)
T ss_pred             CHHHHHHHHHHHHHhccCCCCEEEEecC
Confidence            4444444443333   333569999998

>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=97.02  E-value=0.0026  Score=59.67  Aligned_cols=27  Identities=26%  Similarity=0.341  Sum_probs=21.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.|.|+|.||+||||+|+++...+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~   28 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK   28 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence            578999999999999999999987763

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK06762 hypothetical protein; Provisional

Probab=97.01  E-value=0.0053  Score=53.31  Aligned_cols=25  Identities=36%  Similarity=0.513  Sum_probs=22.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++.|+|++|+||||+|+.+++++
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999876

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.0055  Score=63.35  Aligned_cols=150  Identities=17%  Similarity=0.205  Sum_probs=83.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHH-HH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINM-IG  243 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~  243 (483)
                      ..+.+.++|++|.|||.||+++++.....|-.    ...          .    .++....+       .....+.. ..
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~fi~----v~~----------~----~l~sk~vG-------esek~ir~~F~  329 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSRFIS----VKG----------S----ELLSKWVG-------ESEKNIRELFE  329 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCeEEE----eeC----------H----HHhccccc-------hHHHHHHHHHH
Confidence            35689999999999999999999955544321    100          0    11111111       11222222 23


Q ss_pred             HHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCC--CCCcEEEEEcCCHhHHhh-----CCCcceEecCC
Q 038919          244 RRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWF--GPGSRIIITTRDEHLLKL-----HRVEEVFKLEA  303 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~--~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~  303 (483)
                      ...+..++.|.+|+++..             ..+..++..+...  ..+..||-+|-.+.....     ...+..+.+++
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            333578999999999532             2333444333211  233445555554433221     13456789999


Q ss_pred             CChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC
Q 038919          304 LTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG  340 (483)
Q Consensus       304 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G  340 (483)
                      -+.++..+.|..+......+ -...-..+.+++.+.|
T Consensus       410 pd~~~r~~i~~~~~~~~~~~-~~~~~~~~~l~~~t~~  445 (494)
T COG0464         410 PDLEERLEIFKIHLRDKKPP-LAEDVDLEELAEITEG  445 (494)
T ss_pred             CCHHHHHHHHHHHhcccCCc-chhhhhHHHHHHHhcC
Confidence            99999999999888533322 0111224445555555

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

Probab=96.99  E-value=0.0052  Score=53.76  Aligned_cols=22  Identities=27%  Similarity=0.367  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      ..+++|.|+.|+|||||.+.+.
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4689999999999999999875

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.

>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=96.97  E-value=0.0017  Score=57.65  Aligned_cols=33  Identities=21%  Similarity=0.079  Sum_probs=26.0

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +.|.|++|+|||+|+.+++......-..++|+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            679999999999999999887655544555553

A related protein is found in archaea.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.0064  Score=58.84  Aligned_cols=48  Identities=27%  Similarity=0.308  Sum_probs=35.7

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .++.+.|..+--...++.|-|.||||||||..+++.++.... .+.|+.
T Consensus        80 ~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs  127 (456)
T COG1066          80 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS  127 (456)
T ss_pred             HHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe
Confidence            345555554333357899999999999999999999998776 445543

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.94  E-value=0.0069  Score=55.69  Aligned_cols=48  Identities=19%  Similarity=0.140  Sum_probs=33.6

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|.++|..+=.....+.|.|.+|+|||+|+.+++......-..++|+.
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            445555433344679999999999999999998765544444556654

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.93  E-value=0.0071  Score=53.17  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||++.++....
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCC
Confidence            36899999999999999999987543

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.

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.93  E-value=0.0089  Score=59.81  Aligned_cols=46  Identities=20%  Similarity=0.264  Sum_probs=35.3

Q ss_pred             hhchhHHHHHHHHHhh-----cCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          145 LVGIESRLEKLKFLMG-----AGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~-----~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +-=-..-+.++..||.     ...-+.+++.|+|++|+||||..+.++..+
T Consensus        84 LAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   84 LAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             HhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence            3333456777888887     344457899999999999999999988754

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.93  E-value=0.0023  Score=61.99  Aligned_cols=37  Identities=27%  Similarity=0.293  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.++|..+=....+.-|+|++|+|||+|+.+++-..
T Consensus       114 ~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~  150 (344)
T PLN03187        114 ALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTT  150 (344)
T ss_pred             hHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHH
Confidence            3455565443446788899999999999999987543

>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]

Probab=96.93  E-value=0.0017  Score=63.02  Aligned_cols=74  Identities=32%  Similarity=0.434  Sum_probs=59.8

Q ss_pred             hhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEecccccc--------chhhHHHHHHHHHHHhcCCce
Q 038919            4 SHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYAS--------STWCLDELVKIVEYKNREDQI   75 (483)
Q Consensus         4 ~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~--------s~~cl~El~~~~~~~~~~~~v   75 (483)
                      +-+.--|.-.|++||||-+.+..|.. .+.+.+-|..++.+|.|+|||..+        -.|.-.|+.-+++|++.   +
T Consensus       629 SLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeDWVHKEl~~Afe~~KN---I  704 (832)
T KOG3678|consen  629 SLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCEDWVHKELKCAFEHQKN---I  704 (832)
T ss_pred             HHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccHHHHHHHHHHHHHHhcCC---e
Confidence            44566678999999999988988864 478899999999999999998763        35667788888877543   9


Q ss_pred             Eeeeec
Q 038919           76 FPIFYD   81 (483)
Q Consensus        76 ~Pvf~~   81 (483)
                      ||||-.
T Consensus       705 iPI~D~  710 (832)
T KOG3678|consen  705 IPIFDT  710 (832)
T ss_pred             eeeecc
Confidence            999854

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.93  E-value=0.015  Score=57.44  Aligned_cols=27  Identities=26%  Similarity=0.316  Sum_probs=24.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++.++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            367999999999999999999998765

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.93  E-value=0.0028  Score=60.85  Aligned_cols=37  Identities=22%  Similarity=0.374  Sum_probs=28.0

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..|.++|..+=....++-|+|++|+|||+|+.+++-.
T Consensus        83 ~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~  119 (313)
T TIGR02238        83 QALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVT  119 (313)
T ss_pred             HHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            3455566644445678999999999999999988753

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.92  E-value=0.0066  Score=53.20  Aligned_cols=29  Identities=28%  Similarity=0.388  Sum_probs=25.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+++|.|++|+||||+|+.++..+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~   31 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLREA   31 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            34699999999999999999999987643

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.92  E-value=0.0064  Score=57.68  Aligned_cols=29  Identities=28%  Similarity=0.268  Sum_probs=24.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++++|+|++|+||||++..++..+...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~  221 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLE  221 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            35799999999999999999999877543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.92  E-value=0.013  Score=61.09  Aligned_cols=48  Identities=15%  Similarity=0.204  Sum_probs=38.9

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|....++++.+.+..-......|.|+|.+|+|||++|+.+++.-
T Consensus       196 ~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       196 DGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             CceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            578999999999888776533334568899999999999999998754

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.91  E-value=0.024  Score=58.51  Aligned_cols=149  Identities=20%  Similarity=0.231  Sum_probs=82.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH-HHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG-RRL  246 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~-~~l  246 (483)
                      -|.++|++|+|||-||.+++....-+     |+. +      .++      +++....+..       ++.+..+. +.-
T Consensus       703 giLLyGppGcGKT~la~a~a~~~~~~-----fis-v------KGP------ElL~KyIGaS-------Eq~vR~lF~rA~  757 (952)
T KOG0735|consen  703 GILLYGPPGCGKTLLASAIASNSNLR-----FIS-V------KGP------ELLSKYIGAS-------EQNVRDLFERAQ  757 (952)
T ss_pred             ceEEECCCCCcHHHHHHHHHhhCCee-----EEE-e------cCH------HHHHHHhccc-------HHHHHHHHHHhh
Confidence            48899999999999999998743322     222 2      122      2344433322       22222233 333


Q ss_pred             hcCceEEEEcCCCCH-------------HHHHHHhcCCCC--CCCCcEEEE-EcCCHh----HHhhCCCcceEecCCCCh
Q 038919          247 RQKKVLLVIDDVAHV-------------EQLRRLAGKRDW--FGPGSRIII-TTRDEH----LLKLHRVEEVFKLEALTY  306 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~--~~~~~~ili-TtR~~~----~~~~~~~~~~~~l~~L~~  306 (483)
                      .-+||+|.||.+++.             ..+..++..++.  .-.|.-|+- |||..-    ++.....++.+.-+.-+.
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            469999999999653             345566555441  123555554 566332    222223334444455667


Q ss_pred             HHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          307 DEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       307 ~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      .|-.++|.........+.   ....+.++.++.|..-|
T Consensus       838 ~eRl~il~~ls~s~~~~~---~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  838 PERLEILQVLSNSLLKDT---DVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHHHhhccCCcc---ccchHHHhhhcCCCchh
Confidence            777788776553222211   12356677778887644

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.91  E-value=0.0014  Score=66.70  Aligned_cols=51  Identities=22%  Similarity=0.320  Sum_probs=42.4

Q ss_pred             HhhhchhHHHHHHHHHhh----cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMG----AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~----~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+++|.++.++.+.+.|.    ......+++.++||+|+||||||+.+++-+...
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            568999999999998772    233456899999999999999999999876654

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

Probab=96.89  E-value=0.0018  Score=57.42  Aligned_cols=93  Identities=20%  Similarity=0.208  Sum_probs=52.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHh-cccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLL-KLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~-~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...++|.|+.|+|||||++.++..+... ...+.+.+..+.......       .. .+. ..............+.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~~~-------~~-~~~~~~~~~~~~~~~~~~~~l~~   95 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPHPN-------WV-RLVTRPGNVEGSGEVTMADLLRS   95 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCCCC-------EE-EEEEecCCCCCCCccCHHHHHHH
Confidence            3689999999999999999998876543 223333222111100000       00 000 0000011112234556677


Q ss_pred             HHhcCceEEEEcCCCCHHHHHHH
Q 038919          245 RLRQKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~~~~~~l  267 (483)
                      .++..+-.++++.+.+.+.+..+
T Consensus        96 ~lR~~pd~i~igEir~~ea~~~~  118 (186)
T cd01130          96 ALRMRPDRIIVGEVRGGEALDLL  118 (186)
T ss_pred             HhccCCCEEEEEccCcHHHHHHH
Confidence            78888999999999888765543

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.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.89  E-value=0.0096  Score=51.69  Aligned_cols=127  Identities=20%  Similarity=0.175  Sum_probs=61.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEe---cccccccCCcH-HHHHHHHHHHHhcccCCCccchhhhHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLAD---VKEKYDKEGSV-ISLQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~---~~~~~~~~~~~-~~l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      ..+++|.|+.|.|||||++.++...... .+.+++..   +.-........ ..+...+    ........+.-....-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl----~~~~~~~LS~G~~~rv~  101 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQL----IYPWDDVLSGGEQQRLA  101 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHh----hccCCCCCCHHHHHHHH
Confidence            4689999999999999999998755432 23333321   00011111110 1122221    11011112222222333


Q ss_pred             HHHHHhcCceEEEEcCCC---CHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCCcceEec
Q 038919          242 IGRRLRQKKVLLVIDDVA---HVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKL  301 (483)
Q Consensus       242 l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~~~~~~l  301 (483)
                      +.+.+..++-++++|+-.   |....+.+...+...  +..+|++|.+......  .++++.+
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~~--~d~i~~l  160 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWKF--HDRVLDL  160 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHhh--CCEEEEE
Confidence            445555677788999773   232222222222211  3567888887655432  3444444

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

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

Probab=96.88  E-value=0.0035  Score=52.80  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=21.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +|.+.|++|+||||+|+.+.....
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            578999999999999999987544

...

>PRK08118 topology modulation protein; Reviewed

Probab=96.87  E-value=0.00085  Score=58.31  Aligned_cols=24  Identities=42%  Similarity=0.569  Sum_probs=21.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.|+|++|+||||||+.+++.+.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999999764

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.83  E-value=0.011  Score=52.27  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=20.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +|.|.|++|+||||+|+.++.++
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999865

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.81  E-value=0.011  Score=54.23  Aligned_cols=50  Identities=22%  Similarity=0.353  Sum_probs=33.2

Q ss_pred             HHHHHHhcCceEEEEcCC----C--CHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh
Q 038919          241 MIGRRLRQKKVLLVIDDV----A--HVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKL  292 (483)
Q Consensus       241 ~l~~~l~~~~~LlVlDdv----~--~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~  292 (483)
                      .+.+.|...+=|++||.-    |  ....+-.++..+.  ..|..||++|.+-.....
T Consensus       149 ~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~--~eg~tIl~vtHDL~~v~~  204 (254)
T COG1121         149 LLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELR--QEGKTVLMVTHDLGLVMA  204 (254)
T ss_pred             HHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCcHHhHh
Confidence            456677788999999964    2  2334445554443  348889999998765444

>TIGR00416 sms DNA repair protein RadA

Probab=96.81  E-value=0.0066  Score=61.48  Aligned_cols=50  Identities=24%  Similarity=0.276  Sum_probs=36.1

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +..|.++|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            44556666544445679999999999999999999887765533445554

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)).

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.80  E-value=0.0067  Score=55.71  Aligned_cols=46  Identities=20%  Similarity=0.148  Sum_probs=30.6

Q ss_pred             HHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          156 KFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       156 ~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .+.+..+-+...++.|.|++|+||||||.+++......-..++++.
T Consensus        14 d~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         14 HKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             ehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            3334333334569999999999999999888776643334445543

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.80  E-value=0.001  Score=54.89  Aligned_cols=22  Identities=45%  Similarity=0.712  Sum_probs=20.5

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |+|.|++|+||||+|+++..++
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            6899999999999999999985

...

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.80  E-value=0.0072  Score=61.18  Aligned_cols=49  Identities=22%  Similarity=0.255  Sum_probs=34.9

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..+.+.|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4455566544334579999999999999999999988764433445554

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.80  E-value=0.015  Score=66.65  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++=|.++|++|+|||.||+++|...
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhc
Confidence            4568999999999999999999854

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

Probab=96.79  E-value=0.012  Score=50.86  Aligned_cols=54  Identities=20%  Similarity=0.276  Sum_probs=34.8

Q ss_pred             HHHHHHHHhcCceEEEEcCC----CCHHHHH--HHhcCCCCCCCCcEEEEEcCCHhHHhhCC
Q 038919          239 INMIGRRLRQKKVLLVIDDV----AHVEQLR--RLAGKRDWFGPGSRIIITTRDEHLLKLHR  294 (483)
Q Consensus       239 ~~~l~~~l~~~~~LlVlDdv----~~~~~~~--~l~~~~~~~~~~~~iliTtR~~~~~~~~~  294 (483)
                      .-.+.+.+-++|-+|+-|.-    |..-.|+  .++..+.  ..|..||++|.+..+...+.
T Consensus       145 RvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein--r~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         145 RVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN--RLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh--hcCcEEEEEeccHHHHHhcc
Confidence            34456666789999999954    4332222  2222222  46899999999998877653

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.79  E-value=0.0084  Score=51.79  Aligned_cols=117  Identities=16%  Similarity=0.073  Sum_probs=61.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC------CCcc----ch
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD------NSIR----NV  235 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~------~~~~----~~  235 (483)
                      ...+-|++..|.||||.|...+.+...+-..++++.-+... ...+- ...++.+.-.+.....      ....    ..
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~-~~~GE-~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGA-WPNGE-RAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-cccCh-HHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            35788888899999999999888766554444333322221 11122 2222222000000000      0000    01


Q ss_pred             hhhHHHHHHHHhc-CceEEEEcCCC--------CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          236 YDGINMIGRRLRQ-KKVLLVIDDVA--------HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       236 ~~~~~~l~~~l~~-~~~LlVlDdv~--------~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .......++.+.. .-=|||||.+.        +.+.+-.++...   .++..||+|-|+.
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~r---p~~~evVlTGR~~  140 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQER---PGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhC---CCCCEEEEECCCC
Confidence            1223333444444 44599999983        334444554432   5678999999976

Alternate name: corrinoid adenosyltransferase.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.78  E-value=0.027  Score=51.69  Aligned_cols=210  Identities=13%  Similarity=0.174  Sum_probs=110.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc------ccceeEEEEeccc------cc---
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH------EFDGSSFLADVKE------KY---  207 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~------~f~~~~~~~~~~~------~~---  207 (483)
                      +.+.++++.-..+.++..  ..+.+-..++|++|.||-|.+..+.+++-.      +-+...|......      .+   
T Consensus        13 ~~l~~~~e~~~~Lksl~~--~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~y   90 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSS--TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNY   90 (351)
T ss_pred             hhcccHHHHHHHHHHhcc--cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccc
Confidence            456777777777776655  345788999999999999999888875422      1111222211100      00   


Q ss_pred             ------ccCCc-HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCce-EEEEcCCCCH--HHHHHHhcCCCCCCCC
Q 038919          208 ------DKEGS-VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKV-LLVIDDVAHV--EQLRRLAGKRDWFGPG  277 (483)
Q Consensus       208 ------~~~~~-~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~--~~~~~l~~~~~~~~~~  277 (483)
                            +..+. -.-+.++++..+.+......             ...+++ ++|+-.++..  +.-.++..........
T Consensus        91 HlEitPSDaG~~DRvViQellKevAQt~qie~-------------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~  157 (351)
T KOG2035|consen   91 HLEITPSDAGNYDRVVIQELLKEVAQTQQIET-------------QGQRPFKVVVINEADELTRDAQHALRRTMEKYSSN  157 (351)
T ss_pred             eEEeChhhcCcccHHHHHHHHHHHHhhcchhh-------------ccccceEEEEEechHhhhHHHHHHHHHHHHHHhcC
Confidence                  00000 02222333333222111000             012233 5666666543  2222222222223567


Q ss_pred             cEEEEEcCCH--hHHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh--C
Q 038919          278 SRIIITTRDE--HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL--F  353 (483)
Q Consensus       278 ~~iliTtR~~--~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l--~  353 (483)
                      +|+|+...+-  -+.+.-...-.++++..+++|-...++..+-+....-+  .+++.+|++.++|+---.-.+-...  .
T Consensus       158 ~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~  235 (351)
T KOG2035|consen  158 CRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVN  235 (351)
T ss_pred             ceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            8887633211  11111122335899999999999999888755443322  5889999999999953222221111  1


Q ss_pred             C---------CCHHHHHHHHHHhcc
Q 038919          354 G---------RPVDEWTSTLERLKR  369 (483)
Q Consensus       354 ~---------~~~~~~~~~l~~l~~  369 (483)
                      +         -+..+|+.++.+...
T Consensus       236 n~~~~a~~~~i~~~dWe~~i~e~a~  260 (351)
T KOG2035|consen  236 NEPFTANSQVIPKPDWEIYIQEIAR  260 (351)
T ss_pred             cccccccCCCCCCccHHHHHHHHHH
Confidence            1         235678888877543

>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=0.062  Score=50.10  Aligned_cols=35  Identities=20%  Similarity=0.259  Sum_probs=23.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH-HhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD-LISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~-~~~~~f~~~~~~  200 (483)
                      +-+.+|+|+.|+|||.|.+.+.. ++-+--+..+|+
T Consensus        87 P~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfF  122 (369)
T PF02456_consen   87 PFIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFF  122 (369)
T ss_pred             ceEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEE
Confidence            34567899999999999998875 233333434444

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

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.78  E-value=0.0045  Score=58.01  Aligned_cols=116  Identities=17%  Similarity=0.135  Sum_probs=63.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhccc----CCCccchhhhHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLA----DNSIRNVYDGINM  241 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~----~~~~~~~~~~~~~  241 (483)
                      ...++|.|++|+|||||.+.++..+... .+.+++.. ......... .++... ...+....    .....+... ...
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~g-~~v~~~d~~-~ei~~~-~~~~~q~~~~~r~~v~~~~~k-~~~  185 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLARILSTG-ISQLGLRG-KKVGIVDER-SEIAGC-VNGVPQHDVGIRTDVLDGCPK-AEG  185 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCccCCC-CceEEECC-EEeecchhH-HHHHHH-hcccccccccccccccccchH-HHH
Confidence            4679999999999999999999877643 23333321 111100000 111111 00000000    001111111 222


Q ss_pred             HHHHHh-cCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhH
Q 038919          242 IGRRLR-QKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL  289 (483)
Q Consensus       242 l~~~l~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~  289 (483)
                      +...++ ..+-++++|.+...+.+..+...+.   .|..+|+||.+..+
T Consensus       186 ~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       186 MMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             HHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            333333 5788999999988777776665542   57789999997655

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.

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

Probab=96.77  E-value=0.0036  Score=58.34  Aligned_cols=26  Identities=27%  Similarity=0.515  Sum_probs=22.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +|.++|++|+||||+|++++..+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            37899999999999999999887643

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.76  E-value=0.0066  Score=58.63  Aligned_cols=38  Identities=24%  Similarity=0.382  Sum_probs=29.0

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+..+|..+-....++.|+|++|+|||+|+.+++....
T Consensus        83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~  120 (310)
T TIGR02236        83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQ  120 (310)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34455554434467899999999999999999987654

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.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.095  Score=47.63  Aligned_cols=51  Identities=20%  Similarity=0.321  Sum_probs=37.9

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+=|.+.++++|.+.+-.           +-..+.-+.+||++|.|||-+|++.+.+...-
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aT  232 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNAT  232 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccch
Confidence            5677888999998876532           11234568899999999999999988765443

>PTZ00494 tuzin-like protein; Provisional

Probab=96.75  E-value=0.28  Score=48.49  Aligned_cols=160  Identities=11%  Similarity=0.077  Sum_probs=88.1

Q ss_pred             HhhhchhHHHHHHHHHhhcC-CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG-CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..+|.|+.|=..+.+.|... ...+++++++|.-|.|||+|.+....+-.   -..+|+. ++..   .+.    +..+.
T Consensus       371 ~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~---~paV~VD-VRg~---EDt----LrsVV  439 (664)
T PTZ00494        371 AFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEG---VALVHVD-VGGT---EDT----LRSVV  439 (664)
T ss_pred             ccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcC---CCeEEEE-ecCC---cch----HHHHH
Confidence            67999999988888888763 34589999999999999999988776422   2345543 5433   222    33333


Q ss_pred             HHHhcccCCCccchhhhHH----HHHHHHhcCceEEEEcCC--CCHHH-H---HHHhcCCCCCCCCcEEEEEcCCHhHHh
Q 038919          222 SDLLKLADNSIRNVYDGIN----MIGRRLRQKKVLLVIDDV--AHVEQ-L---RRLAGKRDWFGPGSRIIITTRDEHLLK  291 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~----~l~~~l~~~~~LlVlDdv--~~~~~-~---~~l~~~~~~~~~~~~iliTtR~~~~~~  291 (483)
                      +.+.-.....-.+.-+.+.    .-+....++.-+||+-=-  .+..- .   -.|...    ..-|+|++----+.+..
T Consensus       440 KALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~vaLacD----rRlCHvv~EVplESLT~  515 (664)
T PTZ00494        440 RALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVVSLVSD----CQACHIVLAVPMKALTP  515 (664)
T ss_pred             HHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHHHHHcc----chhheeeeechHhhhch
Confidence            3332221112222222211    112223345555655322  22211 1   112211    34567776443322211


Q ss_pred             ---hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          292 ---LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       292 ---~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                         ..+.-..|.+++++.++|.++.+...
T Consensus       516 ~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        516 LNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhccCccceeEecCCcCHHHHHHHHhccc
Confidence               12233568999999999999887654

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.75  E-value=0.012  Score=51.96  Aligned_cols=122  Identities=20%  Similarity=0.257  Sum_probs=60.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc--H---HHHHHHHHHHHh-----cccCCCccch
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS--V---ISLQKQLISDLL-----KLADNSIRNV  235 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~--~---~~l~~~ll~~~~-----~~~~~~~~~~  235 (483)
                      ..+++|.|+.|+|||||++.++..... ..+.+++.... ... ...  .   .....+++..+.     .........-
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~~-~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGKD-LAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCEE-CCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            468999999999999999999875443 34455553211 110 000  0   011111222211     0101111111


Q ss_pred             hhhHHHHHHHHhcCceEEEEcCCC---CHHHHHHHhcCCCCC-CC-CcEEEEEcCCHhHH
Q 038919          236 YDGINMIGRRLRQKKVLLVIDDVA---HVEQLRRLAGKRDWF-GP-GSRIIITTRDEHLL  290 (483)
Q Consensus       236 ~~~~~~l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~~~~~-~~-~~~iliTtR~~~~~  290 (483)
                      ....-.+.+.+...+-++++|+..   |....+.+...+... .. +..||++|.+....
T Consensus       102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            222223455566778899999873   333333222222111 22 56788888876654

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.75  E-value=0.0039  Score=55.64  Aligned_cols=29  Identities=41%  Similarity=0.559  Sum_probs=26.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.+|+|.|.+|+||||+|+.++..+...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            46799999999999999999999988765

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.025  Score=51.42  Aligned_cols=49  Identities=27%  Similarity=0.404  Sum_probs=36.4

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...=|..++++.+.+....           +-+.+.-|.++|++|.|||-+|++++++..
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtd  236 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTD  236 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccC
Confidence            4556777888887775432           223456689999999999999999999654

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

Probab=96.75  E-value=0.0074  Score=52.85  Aligned_cols=107  Identities=17%  Similarity=0.182  Sum_probs=56.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ..+++|.|+.|+|||||++.++..... ..+.+.+....-.......                  ....-....-.+...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~g~~i~~~~q~~------------------~LSgGq~qrv~lara   85 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIP-NGDNDEWDGITPVYKPQYI------------------DLSGGELQRVAIAAA   85 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCC-CCcEEEECCEEEEEEcccC------------------CCCHHHHHHHHHHHH
Confidence            368999999999999999998875443 2344444321000000000                  011111222234445


Q ss_pred             HhcCceEEEEcCCC---CHHH---HHHHhcCCCCCCCCcEEEEEcCCHhHHhh
Q 038919          246 LRQKKVLLVIDDVA---HVEQ---LRRLAGKRDWFGPGSRIIITTRDEHLLKL  292 (483)
Q Consensus       246 l~~~~~LlVlDdv~---~~~~---~~~l~~~~~~~~~~~~iliTtR~~~~~~~  292 (483)
                      +..++-++++|+-.   |...   +..++..+.. ..+..||++|.+......
T Consensus        86 l~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~-~~~~tiiivsH~~~~~~~  137 (177)
T cd03222          86 LLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSE-EGKKTALVVEHDLAVLDY  137 (177)
T ss_pred             HhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHH-cCCCEEEEEECCHHHHHH
Confidence            56677899999873   3322   2222222111 123567888887765543

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.74  E-value=0.037  Score=59.68  Aligned_cols=48  Identities=21%  Similarity=0.257  Sum_probs=37.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|+...+..+.+.+..-......|.|+|.+|+|||++|+.+.+.-
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            368999988888876655432334578999999999999999998754

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.73  E-value=0.015  Score=53.89  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +..|+|++|+|||+|+.+++..+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999998654

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.72  E-value=0.00094  Score=58.10  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=20.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++.|.|.+|+|||++|..++.+.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            68999999999999999998764

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.72  E-value=0.0082  Score=52.50  Aligned_cols=34  Identities=35%  Similarity=0.493  Sum_probs=25.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+++|.|+.|+|||||.+.++..... ..+.+.+
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~   61 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLLRP-TSGRVRL   61 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccCC-CCCeEEE
Confidence            468999999999999999999875433 2344444

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

>PRK14974 cell division protein FtsY; Provisional

Probab=96.71  E-value=0.028  Score=54.36  Aligned_cols=29  Identities=24%  Similarity=0.265  Sum_probs=25.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++.+++++|++|+||||++..++..+...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            46899999999999999999998877654

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

Probab=96.71  E-value=0.0014  Score=58.62  Aligned_cols=26  Identities=42%  Similarity=0.673  Sum_probs=23.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +|+|.|++|+||||||+.+...+...
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            68999999999999999999988754

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 ....

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.69  E-value=0.0098  Score=60.78  Aligned_cols=103  Identities=17%  Similarity=0.109  Sum_probs=61.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      .++.+..++..   ...++.|+|+.|+||||+...+.+.+...-...+-+.+.-+.. ..+.            ... ..
T Consensus       230 ~~~~l~~~~~~---~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~-~~~~------------~q~-~v  292 (486)
T TIGR02533       230 LLSRFERLIRR---PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQ-IEGI------------GQI-QV  292 (486)
T ss_pred             HHHHHHHHHhc---CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeee-cCCC------------ceE-EE
Confidence            34455555542   2358999999999999999988887654322333333211110 0010            000 00


Q ss_pred             CccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          231 SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      ....-......++..++..|=.|++.++.+.+.....+..
T Consensus       293 ~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd~eta~~a~~a  332 (486)
T TIGR02533       293 NPKIGLTFAAGLRAILRQDPDIIMVGEIRDLETAQIAIQA  332 (486)
T ss_pred             ccccCccHHHHHHHHHhcCCCEEEEeCCCCHHHHHHHHHH
Confidence            0111123456788899999999999999998876655443

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.019  Score=56.80  Aligned_cols=25  Identities=24%  Similarity=0.166  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999765

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.69  E-value=0.0066  Score=58.77  Aligned_cols=39  Identities=23%  Similarity=0.372  Sum_probs=29.1

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+..+|..+-....++-|+|++|+|||+|+.+++....
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~  127 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQ  127 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhc
Confidence            344455554334467899999999999999999987653

>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=96.68  E-value=0.0075  Score=57.59  Aligned_cols=101  Identities=23%  Similarity=0.232  Sum_probs=55.7

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCc
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSI  232 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~  232 (483)
                      .|...|. .+-+..+++-|+|+.|+||||||.++.......-..++|+. ....     +-......+.-.+....-..+
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-AEHA-----LDPEYAESLGVDLDRLLVVQP  113 (322)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEE-SSS--------HHHHHHTT--GGGEEEEE-
T ss_pred             ccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEec-Cccc-----chhhHHHhcCccccceEEecC
Confidence            3444554 22233679999999999999999999988766655556654 2211     112333333222211111223


Q ss_pred             cchhhhHHHHHHHHhcC-ceEEEEcCCCC
Q 038919          233 RNVYDGINMIGRRLRQK-KVLLVIDDVAH  260 (483)
Q Consensus       233 ~~~~~~~~~l~~~l~~~-~~LlVlDdv~~  260 (483)
                      ...++....+...++.. --++|+|-|..
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            44455666666666643 45889998843

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 ....

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

Probab=96.68  E-value=0.019  Score=50.15  Aligned_cols=26  Identities=31%  Similarity=0.413  Sum_probs=23.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++.++|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57899999999999999999887665

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.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.68  E-value=0.012  Score=51.50  Aligned_cols=34  Identities=29%  Similarity=0.490  Sum_probs=25.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+++|.|+.|.|||||++.++..... ..+.+++
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~   59 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLKP-DSGEIKV   59 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEE
Confidence            468999999999999999998875432 2344443

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.68  E-value=0.024  Score=56.90  Aligned_cols=29  Identities=28%  Similarity=0.335  Sum_probs=25.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.++.++|++|+||||++..++..+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46789999999999999999999887654

>PRK07261 topology modulation protein; Provisional

Probab=96.67  E-value=0.0013  Score=57.32  Aligned_cols=23  Identities=43%  Similarity=0.551  Sum_probs=20.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.|+|++|+||||||++++...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998764

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.64  E-value=0.025  Score=55.37  Aligned_cols=28  Identities=21%  Similarity=0.216  Sum_probs=24.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++++|++|+||||++..++.+....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~  164 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMR  164 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            5799999999999999999999876544

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

Probab=96.64  E-value=0.0082  Score=54.86  Aligned_cols=41  Identities=24%  Similarity=0.285  Sum_probs=29.5

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .++.+.+.....+..+|+|+|+||.|||||..++...+...
T Consensus        16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            34444444334457899999999999999999999887754

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.

>PTZ00035 Rad51 protein; Provisional

Probab=96.64  E-value=0.0087  Score=58.16  Aligned_cols=39  Identities=23%  Similarity=0.323  Sum_probs=29.7

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..|.++|..+-....++.|+|++|+|||+|+..++-...
T Consensus       105 ~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~q  143 (337)
T PTZ00035        105 TQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQ  143 (337)
T ss_pred             HHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhc
Confidence            445566665444568999999999999999998876443

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.033  Score=51.39  Aligned_cols=52  Identities=27%  Similarity=0.399  Sum_probs=39.5

Q ss_pred             HhhhchhHHHHHHHHHhhcC-----------CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          143 KELVGIESRLEKLKFLMGAG-----------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .+.=|.+.+++++.+.....           -..+.-|.+||.+|.|||-||++++++.+.-|
T Consensus       185 ~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATF  247 (440)
T KOG0726|consen  185 ADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATF  247 (440)
T ss_pred             cccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhh
Confidence            45667899999998865431           12345688999999999999999999766544

>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=96.64  E-value=0.0039  Score=58.97  Aligned_cols=118  Identities=19%  Similarity=0.188  Sum_probs=65.9

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      ..+.+.++|...-...+.+.|.|+.|+||||++..+...+...-...+.+.+..+..-. ..             .....
T Consensus       112 ~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~-~~-------------~~~~~  177 (270)
T PF00437_consen  112 IPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLP-GP-------------NQIQI  177 (270)
T ss_dssp             CHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--S-CS-------------SEEEE
T ss_pred             hHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeec-cc-------------ceEEE
Confidence            33455555543222357899999999999999999998776652233333322211100 00             00000


Q ss_pred             Cc-cchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEE-EEEcCC
Q 038919          231 SI-RNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRI-IITTRD  286 (483)
Q Consensus       231 ~~-~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~i-liTtR~  286 (483)
                      .. .+.....+.+...++..+=.++++.+.+.+....+...    ..|..+ +-|...
T Consensus       178 ~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~~a~----~tGh~~~~tT~Ha  231 (270)
T PF00437_consen  178 QTRRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAIQAA----NTGHLGSLTTLHA  231 (270)
T ss_dssp             EEETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHHHHH----HTT-EEEEEEEE-
T ss_pred             EeecCcccHHHHHHHHhcCCCCcccccccCCHhHHHHHHhh----ccCCceeeeeeec
Confidence            01 23345566788889999999999999887777664332    346666 555553

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 ....

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=96.63  E-value=0.23  Score=50.99  Aligned_cols=48  Identities=17%  Similarity=0.238  Sum_probs=37.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|....+..+.+.+.........+.|+|.+|+|||++|+.+.+..
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s  185 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHS  185 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcC
Confidence            468899888888777665433344568999999999999999987753

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.62  E-value=0.007  Score=62.47  Aligned_cols=26  Identities=38%  Similarity=0.517  Sum_probs=23.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +..++..++|++|+||||||.-++++
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHh
Confidence            34689999999999999999999884

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.04  Score=56.80  Aligned_cols=175  Identities=19%  Similarity=0.252  Sum_probs=94.2

Q ss_pred             HhhhchhHHHHHHHHH---hhcCC-------CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFL---MGAGC-------NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~---L~~~~-------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+..|.++..+++.+.   |....       .-++-+.++|++|.|||.||++++....-.|    |..  +.       
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPF----f~i--SG-------  216 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF----FSI--SG-------  216 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCc----eec--cc-------
Confidence            5678988766666654   44321       1255689999999999999999997543322    111  00       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWFGP  276 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~~~  276 (483)
                       .+.    ..-..+.      ..........+..++.|+++++|.++..                ..+..++-..+.++.
T Consensus       217 -S~F----VemfVGv------GAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~  285 (596)
T COG0465         217 -SDF----VEMFVGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGG  285 (596)
T ss_pred             -hhh----hhhhcCC------CcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCC
Confidence             000    1111111      1111223344445677899999988532                245666666665553


Q ss_pred             CcEEE-E--EcCCH----hHHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          277 GSRII-I--TTRDE----HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       277 ~~~il-i--TtR~~----~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      +.-|| +  |.|..    .++.....++.+.++..+...-.+.+.-++-.....+.-  + ...|++.+-|.-.|
T Consensus       286 ~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~V--d-l~~iAr~tpGfsGA  357 (596)
T COG0465         286 NEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDV--D-LKKIARGTPGFSGA  357 (596)
T ss_pred             CCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcC--C-HHHHhhhCCCcccc
Confidence            33233 2  44432    122233455667777777777777777665443322111  1 22366777776543

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.61  E-value=0.0082  Score=61.63  Aligned_cols=50  Identities=22%  Similarity=0.246  Sum_probs=38.1

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +..|.++|..+-....++.|.|++|+|||||+.+++.....+-..++++.
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            45566667655555689999999999999999999998766555555554

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.61  E-value=0.045  Score=56.79  Aligned_cols=47  Identities=17%  Similarity=0.056  Sum_probs=35.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+++|....+.++.+.+..-......|.|+|.+|+||+.||+.+...
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh
Confidence            47899998888777665432222345889999999999999996553

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

Probab=96.60  E-value=0.0014  Score=52.34  Aligned_cols=26  Identities=35%  Similarity=0.512  Sum_probs=22.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      |.|+|++|+|||+||..++..+.+++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            46999999999999999998776543

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

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

Probab=96.59  E-value=0.0019  Score=46.88  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=21.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +++|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999986

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.59  E-value=0.0037  Score=57.45  Aligned_cols=32  Identities=31%  Similarity=0.427  Sum_probs=27.4

Q ss_pred             CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          163 CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       163 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .+...+++|.|++|+|||||++.++..+....
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~   61 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQDG   61 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhcc
Confidence            34578999999999999999999998877643

>PRK10436 hypothetical protein; Provisional

Probab=96.59  E-value=0.016  Score=58.55  Aligned_cols=103  Identities=14%  Similarity=0.080  Sum_probs=61.0

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      .++.+.+++..   ...++.|+|+.|+||||....+.+.+.......+-+.+.-+.. ..+.            .. ...
T Consensus       206 ~~~~l~~~~~~---~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~-l~gi------------~Q-~~v  268 (462)
T PRK10436        206 QLAQFRQALQQ---PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIP-LAGI------------NQ-TQI  268 (462)
T ss_pred             HHHHHHHHHHh---cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCcccc-CCCc------------ce-Eee
Confidence            44455555543   2368999999999999998877776544322222222111110 0000            00 000


Q ss_pred             CccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          231 SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      ....-......++..++..|=.|++.++.+.+.....+..
T Consensus       269 ~~~~g~~f~~~lr~~LR~dPDvI~vGEIRD~eta~~al~A  308 (462)
T PRK10436        269 HPKAGLTFQRVLRALLRQDPDVIMVGEIRDGETAEIAIKA  308 (462)
T ss_pred             CCccCcCHHHHHHHHhcCCCCEEEECCCCCHHHHHHHHHH
Confidence            1111124567788899999999999999998877654443

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.58  E-value=0.0032  Score=61.62  Aligned_cols=97  Identities=14%  Similarity=0.113  Sum_probs=56.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccce---eEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDG---SSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMI  242 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l  242 (483)
                      ...|.|+|+.|+||||++..++..+....+.   .+.+.+.-+. ..    ..... .. ....... ...+.......+
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~-~~----~~~~~-~~-~~v~Q~~-v~~~~~~~~~~l  205 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF-VY----DEIET-IS-ASVCQSE-IPRHLNNFAAGV  205 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE-ec----ccccc-cc-ceeeeee-ccccccCHHHHH
Confidence            3799999999999999999999877544321   2222211111 00    00000 00 0000000 111223455667


Q ss_pred             HHHHhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          243 GRRLRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       243 ~~~l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      +..++..|-.+++..+.+.+.....+..
T Consensus       206 ~~aLR~~Pd~i~vGEiRd~et~~~al~a  233 (358)
T TIGR02524       206 RNALRRKPHAILVGEARDAETISAALEA  233 (358)
T ss_pred             HHHhccCCCEEeeeeeCCHHHHHHHHHH
Confidence            8889999999999999998887655443

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.

>PTZ00301 uridine kinase; Provisional

Probab=96.58  E-value=0.003  Score=56.93  Aligned_cols=29  Identities=28%  Similarity=0.448  Sum_probs=24.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ..+|+|.|.+|+||||||+.+.+++...+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~~   31 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAHC   31 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhhc
Confidence            46899999999999999999998775443

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.57  E-value=0.0029  Score=57.38  Aligned_cols=23  Identities=22%  Similarity=0.170  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+.+.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999999884

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

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=96.57  E-value=0.012  Score=60.41  Aligned_cols=56  Identities=18%  Similarity=0.285  Sum_probs=35.5

Q ss_pred             HHHHHhcCceEEEEcCC------CCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCCcceEecCC
Q 038919          242 IGRRLRQKKVLLVIDDV------AHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEA  303 (483)
Q Consensus       242 l~~~l~~~~~LlVlDdv------~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~~~~~~l~~  303 (483)
                      +...+-.++-+||||.-      ++.+.++..+..     -.+.||+.|.++....... ..++.+.+
T Consensus       450 La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~-----f~Gtvl~VSHDr~Fl~~va-~~i~~~~~  511 (530)
T COG0488         450 LAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLD-----FEGTVLLVSHDRYFLDRVA-TRIWLVED  511 (530)
T ss_pred             HHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHh-----CCCeEEEEeCCHHHHHhhc-ceEEEEcC
Confidence            34445578889999965      334455554443     2345888999998877653 45566554

>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=96.57  E-value=0.0057  Score=52.17  Aligned_cols=87  Identities=24%  Similarity=0.297  Sum_probs=46.3

Q ss_pred             EeCCCCCChhHHHHHHHHHhhcccceeEEEEeccc----ccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          171 IWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKE----KYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       171 I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~----~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      |.|+||+||||+|..++.++.  |   ..+. +.+    ......   .+... +...+...  ..-+.+.....+...+
T Consensus         1 i~G~PgsGK~t~~~~la~~~~--~---~~is-~~~llr~~~~~~s---~~g~~-i~~~l~~g--~~vp~~~v~~ll~~~l   68 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYG--L---VHIS-VGDLLREEIKSDS---ELGKQ-IQEYLDNG--ELVPDELVIELLKERL   68 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHT--S---EEEE-HHHHHHHHHHTTS---HHHHH-HHHHHHTT--SS--HHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcC--c---ceec-hHHHHHHHHhhhh---HHHHH-HHHHHHhh--ccchHHHHHHHHHHHH
Confidence            689999999999999999652  2   2222 111    111111   11111 22222222  2223344556666666


Q ss_pred             hcC--ceEEEEcCC-CCHHHHHHHhc
Q 038919          247 RQK--KVLLVIDDV-AHVEQLRRLAG  269 (483)
Q Consensus       247 ~~~--~~LlVlDdv-~~~~~~~~l~~  269 (483)
                      ...  ..-+|||++ .+.++.+.|..
T Consensus        69 ~~~~~~~g~ildGfPrt~~Qa~~l~~   94 (151)
T PF00406_consen   69 EQPPCNRGFILDGFPRTLEQAEALEE   94 (151)
T ss_dssp             HSGGTTTEEEEESB-SSHHHHHHHHH
T ss_pred             hhhcccceeeeeeccccHHHHHHHHH
Confidence            533  456889999 56676666654

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 ....

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.57  E-value=0.55  Score=44.82  Aligned_cols=167  Identities=12%  Similarity=0.040  Sum_probs=89.4

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc---------cceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE---------FDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ++.+.+.+..+ .-.++..++|..|+||+++|..+++.+-..         .+..+.+.+..+  ....  .+-..++..
T Consensus         5 ~~~l~~~i~~~-~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g--~~i~--vd~Ir~l~~   79 (299)
T PRK07132          5 IKFLDNSATQN-KISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFD--KDLS--KSEFLSAIN   79 (299)
T ss_pred             HHHHHHHHHhC-CCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCC--CcCC--HHHHHHHHH
Confidence            34455555532 235788899999999999999999876211         111111111000  0000  011111111


Q ss_pred             HHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhh-CCCcce
Q 038919          223 DLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDE-HLLKL-HRVEEV  298 (483)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~-~~~~~~  298 (483)
                      .+.-.    +            .-.+.+=++|+||++..  .....|+..+..-++++.+|++|.+. .+.+. ......
T Consensus        80 ~~~~~----~------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~  143 (299)
T PRK07132         80 KLYFS----S------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQV  143 (299)
T ss_pred             HhccC----C------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEE
Confidence            11000    0            00135668889998644  44555665555446777777655443 34432 345678


Q ss_pred             EecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          299 FKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       299 ~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      +++.+++.++..+.+....    . +   .+.+..++..++|.=-|+..
T Consensus       144 ~~f~~l~~~~l~~~l~~~~----~-~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        144 FNVKEPDQQKILAKLLSKN----K-E---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             EECCCCCHHHHHHHHHHcC----C-C---hhHHHHHHHHcCCHHHHHHH
Confidence            9999999999998886541    1 1   13355556666652244444

>TIGR01069 mutS2 MutS2 family protein

Probab=96.56  E-value=0.006  Score=65.85  Aligned_cols=24  Identities=29%  Similarity=0.249  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+.++|+|+.|.|||||.+.+.-.
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHH
Confidence            478999999999999999998764

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.

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.002  Score=55.50  Aligned_cols=28  Identities=36%  Similarity=0.501  Sum_probs=23.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+.|.|+.|+|||||.+.++--.+..
T Consensus        28 Ge~~~i~G~NG~GKTtLLRilaGLl~p~   55 (209)
T COG4133          28 GEALQITGPNGAGKTTLLRILAGLLRPD   55 (209)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcccCCC
Confidence            3579999999999999999998765544

>PRK08233 hypothetical protein; Provisional

Probab=96.56  E-value=0.002  Score=56.88  Aligned_cols=26  Identities=31%  Similarity=0.413  Sum_probs=23.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|+|.|.+|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            37899999999999999999998764

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.56  E-value=0.0074  Score=52.92  Aligned_cols=117  Identities=17%  Similarity=0.154  Sum_probs=61.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHH-HHHhcccCC---Cccc-------
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLI-SDLLKLADN---SIRN-------  234 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll-~~~~~~~~~---~~~~-------  234 (483)
                      ...|.|+|..|-||||.|...+.+...+-..+.++.-+.... ..+- ...++.+- -.+......   ...+       
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            468999999999999999998887665544444443333221 1122 22222210 000000000   0011       


Q ss_pred             hhhhHHHHHHHHhc-CceEEEEcCCC--------CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          235 VYDGINMIGRRLRQ-KKVLLVIDDVA--------HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       235 ~~~~~~~l~~~l~~-~~~LlVlDdv~--------~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      ........++.+.. .-=|||||.+.        +.+.+-.++...   .++..||+|-|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~r---p~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNAR---PGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcC---CCCCEEEEECCCC
Confidence            11123333444444 45599999983        234444444432   5678999999975

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.56  E-value=0.065  Score=57.30  Aligned_cols=48  Identities=15%  Similarity=0.198  Sum_probs=35.7

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++|....+.++.+....-......|.|+|.+|+||+++|+.+.+.-
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s  372 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNES  372 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            457888887777776655422233458899999999999999998753

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.55  E-value=0.0062  Score=51.94  Aligned_cols=35  Identities=20%  Similarity=0.185  Sum_probs=28.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      ...++.++|.+|.||||+|.++...+.........
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~   56 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYL   56 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEE
Confidence            45799999999999999999999998876544333

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.55  E-value=0.0024  Score=57.84  Aligned_cols=27  Identities=41%  Similarity=0.630  Sum_probs=24.4

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+..+|+|.|++|+|||||+..++..+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999999999999999999876

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.55  E-value=0.0049  Score=60.48  Aligned_cols=107  Identities=20%  Similarity=0.153  Sum_probs=60.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc-e-eEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD-G-SSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ..+.|+|+.|+||||++..+.+.+....+ . .+.+.+..+..-. +. ..+    .. ...  .....+.......++.
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~-~~-~~~----~~-~~q--~evg~~~~~~~~~l~~  220 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILG-SP-DDL----LP-PAQ--SQIGRDVDSFANGIRL  220 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccC-CC-cee----ec-ccc--cccCCCccCHHHHHHH
Confidence            47889999999999999999887754332 2 2333222111100 00 000    00 000  0001122345567888


Q ss_pred             HHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcC
Q 038919          245 RLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTR  285 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR  285 (483)
                      .++..|=.|+++.+.+.+..+..+...   ..|..++-|-.
T Consensus       221 aLR~~PD~I~vGEiRd~et~~~al~aa---~TGH~v~tTlH  258 (372)
T TIGR02525       221 ALRRAPKIIGVGEIRDLETFQAAVLAG---QSGHFCLGTLH  258 (372)
T ss_pred             hhccCCCEEeeCCCCCHHHHHHHHHHH---hcCCcEEEeeC
Confidence            899999999999999998877644432   23444444444

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).

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.54  E-value=0.0042  Score=51.26  Aligned_cols=41  Identities=20%  Similarity=0.165  Sum_probs=29.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +..++-+.|...-....++.+.|.-|.|||||++.+++.+.
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            34444444443222346899999999999999999998653

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.54  E-value=0.034  Score=54.19  Aligned_cols=29  Identities=28%  Similarity=0.327  Sum_probs=24.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++.|+|+.|+||||++..++..+...
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~  233 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ  233 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            46899999999999999999998876544

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.53  E-value=0.0035  Score=52.62  Aligned_cols=22  Identities=45%  Similarity=0.560  Sum_probs=20.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999987

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.53  E-value=0.0026  Score=63.76  Aligned_cols=46  Identities=17%  Similarity=0.158  Sum_probs=39.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++||++.++.+...+..+    ..|.|.|++|+|||+||+.++.....
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhcc
Confidence            47999999999998877644    45899999999999999999987654

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

Probab=96.53  E-value=0.0099  Score=54.63  Aligned_cols=124  Identities=19%  Similarity=0.197  Sum_probs=65.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc--cCCcHHHHHHHHHHHHhccc------CCCccchhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD--KEGSVISLQKQLISDLLKLA------DNSIRNVYD  237 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~l~~~ll~~~~~~~------~~~~~~~~~  237 (483)
                      ..+++|+|.+|+|||||++.+..-..... +.+++..- +...  .... .....+++.......      +.....-..
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~pt~-G~i~f~g~-~i~~~~~~~~-~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEPTS-GEILFEGK-DITKLSKEER-RERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCCCC-ceEEEcCc-chhhcchhHH-HHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            46899999999999999999998665443 33444311 1100  1111 223333444322111      111111112


Q ss_pred             hHHHHHHHHhcCceEEEEcCCCCH------HHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhC
Q 038919          238 GINMIGRRLRQKKVLLVIDDVAHV------EQLRRLAGKRDWFGPGSRIIITTRDEHLLKLH  293 (483)
Q Consensus       238 ~~~~l~~~l~~~~~LlVlDdv~~~------~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~  293 (483)
                      ..-.+.+.+.-++-++|.|...+.      .++-.++..+.. ..|...++.|.+-.+....
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~lt~lFIsHDL~vv~~i  176 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELGLTYLFISHDLSVVRYI  176 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhCCeEEEEEEEHHhhhhh
Confidence            223456677788999999987322      333333333221 2356677777776665543

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

Probab=96.52  E-value=0.015  Score=50.91  Aligned_cols=23  Identities=39%  Similarity=0.453  Sum_probs=20.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.|.|++|+||||+|+.+++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999974

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.48  E-value=0.02  Score=49.47  Aligned_cols=23  Identities=30%  Similarity=0.344  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .++-.|+|..|+|||||...++.
T Consensus        37 apIT~i~GENGsGKSTLLEaiA~   59 (233)
T COG3910          37 APITFITGENGSGKSTLLEAIAA   59 (233)
T ss_pred             CceEEEEcCCCccHHHHHHHHHh
Confidence            57999999999999999999886

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.47  E-value=0.049  Score=54.72  Aligned_cols=26  Identities=23%  Similarity=0.259  Sum_probs=23.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+++.++|++|+||||++..++..+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999988765

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.47  E-value=0.014  Score=52.36  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|.|||||.+.++..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          26 GEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998875

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.47  E-value=0.0073  Score=57.57  Aligned_cols=50  Identities=32%  Similarity=0.412  Sum_probs=33.5

Q ss_pred             HhhhchhHHHHHHHH-Hhhc-CCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKF-LMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~-~L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .-.+.....+....+ .+.. ....+-+|+|.|.+|+||||+|..+...+..
T Consensus        61 ~~~~~~~~~~~~~~~~fl~~~~~~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         61 NLYVAANQRLQAALEQFLGKNGQKVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             HHHHHhhHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            334444444444444 3332 3345789999999999999999999887654

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.46  E-value=0.011  Score=56.28  Aligned_cols=135  Identities=16%  Similarity=0.228  Sum_probs=69.4

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHH--HHh-hcccceeEEEEecccccc-----------c
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVY--DLI-SHEFDGSSFLADVKEKYD-----------K  209 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~--~~~-~~~f~~~~~~~~~~~~~~-----------~  209 (483)
                      .+-+|..+-.--..+|.  .++...|.+.|.+|.|||-||.+..  +-+ +..|...+.....-....           .
T Consensus       225 Gi~prn~eQ~~ALdlLl--d~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeK  302 (436)
T COG1875         225 GIRPRNAEQRVALDLLL--DDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEK  302 (436)
T ss_pred             ccCcccHHHHHHHHHhc--CCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhh
Confidence            34556655555455555  3467899999999999999986654  222 223433332211111111           1


Q ss_pred             CCcHHHHHHHHHHHHhcccCCCccchhhhHHHH----------HHHHhcC---ceEEEEcCCCC--HHHHHHHhcCCCCC
Q 038919          210 EGSVISLQKQLISDLLKLADNSIRNVYDGINMI----------GRRLRQK---KVLLVIDDVAH--VEQLRRLAGKRDWF  274 (483)
Q Consensus       210 ~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l----------~~~l~~~---~~LlVlDdv~~--~~~~~~l~~~~~~~  274 (483)
                      ...+.+-...-+..+.......    ...+..+          ..+++++   +.++|+|.+.+  +.++..++...   
T Consensus       303 m~PWmq~i~DnLE~L~~~~~~~----~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTiltR~---  375 (436)
T COG1875         303 MGPWMQAIFDNLEVLFSPNEPG----DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTILTRA---  375 (436)
T ss_pred             ccchHHHHHhHHHHHhcccccc----hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHHHHhc---
Confidence            1111122222223322222111    1111111          0122333   56999999975  46677766543   


Q ss_pred             CCCcEEEEEcCCH
Q 038919          275 GPGSRIIITTRDE  287 (483)
Q Consensus       275 ~~~~~iliTtR~~  287 (483)
                      ++|++|+.|.--.
T Consensus       376 G~GsKIVl~gd~a  388 (436)
T COG1875         376 GEGSKIVLTGDPA  388 (436)
T ss_pred             cCCCEEEEcCCHH
Confidence            8999999987643

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.46  E-value=0.011  Score=56.95  Aligned_cols=37  Identities=27%  Similarity=0.353  Sum_probs=28.3

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..|..+|..+-....++.|+|++|+|||+|+..++..
T Consensus        83 ~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~  119 (316)
T TIGR02239        83 KELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVT  119 (316)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            3455555544445689999999999999999998864

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).

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.46  E-value=0.007  Score=52.37  Aligned_cols=115  Identities=15%  Similarity=0.175  Sum_probs=58.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ..+++|.|+.|.|||||.+.++..... ..+.+++.... .. .... ...    ......... ....-....-.+.+.
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~~-~~G~v~~~g~~-~~-~~~~-~~~----~~~~i~~~~-qLS~G~~qrl~lara   96 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYKP-DSGEILVDGKE-VS-FASP-RDA----RRAGIAMVY-QLSVGERQMVEIARA   96 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCEE-CC-cCCH-HHH----HhcCeEEEE-ecCHHHHHHHHHHHH
Confidence            368999999999999999999875433 34455543211 11 0000 010    010000000 011112222234445


Q ss_pred             HhcCceEEEEcCCC---CHHH---HHHHhcCCCCCCCCcEEEEEcCCHhHHh
Q 038919          246 LRQKKVLLVIDDVA---HVEQ---LRRLAGKRDWFGPGSRIIITTRDEHLLK  291 (483)
Q Consensus       246 l~~~~~LlVlDdv~---~~~~---~~~l~~~~~~~~~~~~iliTtR~~~~~~  291 (483)
                      +-..+-++++|+..   |...   +..++..+.  ..+..||++|.+.....
T Consensus        97 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~--~~~~tiii~sh~~~~~~  146 (163)
T cd03216          97 LARNARLLILDEPTAALTPAEVERLFKVIRRLR--AQGVAVIFISHRLDEVF  146 (163)
T ss_pred             HhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCHHHHH
Confidence            55677889999873   3332   323332221  24667888888876443

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.45  E-value=0.015  Score=54.56  Aligned_cols=55  Identities=16%  Similarity=0.183  Sum_probs=39.0

Q ss_pred             HhhhchhHHHHH-HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          143 KELVGIESRLEK-LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       143 ~~~vGR~~~l~~-l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      ..+......+.. ..++|..  .+..++.|.|.+|+|||||+..+...+.......+.
T Consensus        82 ~~il~~n~~~a~~~r~~~~~--~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI  137 (290)
T PRK10463         82 IDVLDKNNRLAERNRARFAA--RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI  137 (290)
T ss_pred             HHHHHHhHHHHHHHHHHHHh--cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence            455555555544 3344442  357899999999999999999999988766544443

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=96.44  E-value=0.029  Score=61.55  Aligned_cols=279  Identities=14%  Similarity=0.097  Sum_probs=128.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc----ceeEEEEecccccccCCcHHH-HHHHHHHHHhcccCCCccchhhhHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF----DGSSFLADVKEKYDKEGSVIS-LQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f----~~~~~~~~~~~~~~~~~~~~~-l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      .-+.|+|.+|.||||+...++-......    +..+++. +............ .+...+......    ..........
T Consensus       223 ~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~-l~~~~~~~~~~~q~~~~~~l~~~~~~----~~~~~~~~~~  297 (824)
T COG5635         223 AKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLL-LNAFALARKFEKQLSLIDYLAEELFS----QGIAKQLIEA  297 (824)
T ss_pred             hheeeecCCCCCceehHHHHHHHhccCcCCcccCceeee-chhHHHhhhhHhhccHHHHHHHHHhc----cCCcchhhHH
Confidence            3689999999999999999887544332    1122221 1110000000011 111111111111    1112222222


Q ss_pred             HHHHHhcCceEEEEcCCCCHH---------HHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCCcceEecCCCChHHHHHH
Q 038919          242 IGRRLRQKKVLLVIDDVAHVE---------QLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKLEALTYDEAFQL  312 (483)
Q Consensus       242 l~~~l~~~~~LlVlDdv~~~~---------~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~~~~~~l~~L~~~ea~~L  312 (483)
                      ..+.+...++++.+|.++...         .+..+.+.    -+..++|+|+|....-........+++..+.++.-...
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~~----~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~  373 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQE----YPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQF  373 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhhh----ccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHH
Confidence            357788999999999986542         13333333    46889999998664433332334455555555443332


Q ss_pred             HH--------HhhccCCCCC-chH-HH---HHHHHHHHhCCChHHHHHHHHHhC------CCCHHHHHHHHHHhccCCCc
Q 038919          313 FC--------LKAFETQKPR-EEY-VH---LSQLVVNYAGGLPLALKVLGSFLF------GRPVDEWTSTLERLKREPEN  373 (483)
Q Consensus       313 ~~--------~~~~~~~~~~-~~~-~~---~~~~i~~~~~G~PLal~~la~~l~------~~~~~~~~~~l~~l~~~~~~  373 (483)
                      ..        ...++..... ..+ ..   -..+-.+....+|+.|.+.+..-.      .....-++..++.+-...+.
T Consensus       374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~~~d~  453 (824)
T COG5635         374 ILYQWLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLGREDE  453 (824)
T ss_pred             HHHHHHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHhccch
Confidence            22        1111111111 000 00   012223334888999988874433      13344555555554332221


Q ss_pred             cHHHHHHHhhcCCcH-HHHH-HHhhhhcCCC---------CCCHHHHHHHHHhCCCC------hhhhHHHHh---hCCce
Q 038919          374 EILDILQISFDGLKE-AEKE-IFLDVACFFK---------GEKRDYVSKILDSCGFE------PVIGIGVLI---EKSLL  433 (483)
Q Consensus       374 ~v~~~l~~s~~~L~~-~~k~-~l~~la~f~~---------~~~~~~l~~~~~~~~~~------~~~~l~~L~---~~sLi  433 (483)
                      .=...+...|..+.. .... ++..+|.+..         ....+.+...+......      ....+..+.   +.|++
T Consensus       454 ~~~~~~~~~~~~~~~~~~~~~l~~~la~~~~~~~~~~~~~~~~~~~i~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~glL  533 (824)
T COG5635         454 TRGIKWSKTYAKLTTDQQDKWLLQLLAALLFEKLDEEFTEFLLKDDIVDYLLNQAEDEDDLIALALALEALLKLLQHGLL  533 (824)
T ss_pred             hhhhcchhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccCCcccHHHHHHHHHHHHHHHhcchH
Confidence            111123334444433 3333 4544444321         11222222222221111      111233333   77877


Q ss_pred             eEecCCeEEc-cHHHHHHHHHH
Q 038919          434 TICESDRLWM-HDLLLEMGRQI  454 (483)
Q Consensus       434 ~~~~~~~~~m-H~lvr~~~~~~  454 (483)
                      ...+.+.|.+ |..++++--..
T Consensus       534 ~~~~~~~~~F~~~tFqey~~a~  555 (824)
T COG5635         534 VERAKIVYAFAHATFQEYFAAK  555 (824)
T ss_pred             HHHhhhhHHHHHHHHHHHHHHH
Confidence            7665666654 77688864433

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.44  E-value=0.019  Score=51.85  Aligned_cols=25  Identities=36%  Similarity=0.484  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|.|||||++.++...
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         28 GEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999988743

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.43  E-value=0.01  Score=53.27  Aligned_cols=36  Identities=19%  Similarity=0.217  Sum_probs=28.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...+++|+|++|+||||||+.+...+.......+++
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l   58 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL   58 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            457999999999999999999999875543334444

>PRK03839 putative kinase; Provisional

Probab=96.43  E-value=0.0026  Score=56.08  Aligned_cols=24  Identities=33%  Similarity=0.638  Sum_probs=21.8

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.|.|++|+||||+++.+++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999999764

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.43  E-value=0.011  Score=57.48  Aligned_cols=37  Identities=22%  Similarity=0.288  Sum_probs=28.0

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..|..+|..+-....++-|+|++|+|||+|+..++..
T Consensus       110 ~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~  146 (342)
T PLN03186        110 RELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVT  146 (342)
T ss_pred             HHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHH
Confidence            3455555544344678999999999999999988854

>PRK04040 adenylate kinase; Provisional

Probab=96.43  E-value=0.0034  Score=55.65  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=23.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|+|++|+||||+++.+++++.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999999874

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.42  E-value=0.01  Score=57.13  Aligned_cols=108  Identities=18%  Similarity=0.158  Sum_probs=59.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccC-CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKE-GSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...++|+|+.|+|||||++.+...+.... ..+.+.+..+..... .. .        .+...............+.+..
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~~~~-~--------~l~~~~~~~~~~~~~~~~~l~~  213 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPHPNY-V--------HLFYSKGGQGLAKVTPKDLLQS  213 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCCCCE-E--------EEEecCCCCCcCccCHHHHHHH
Confidence            36899999999999999999987664432 233333222211100 00 0        0000000001111233456677


Q ss_pred             HHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcE-EEEEcCCH
Q 038919          245 RLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSR-IIITTRDE  287 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~-iliTtR~~  287 (483)
                      .++..+-.+++|.+.+.+.+.. +....   .|.. ++.|+...
T Consensus       214 ~Lr~~pd~ii~gE~r~~e~~~~-l~a~~---~g~~~~i~T~Ha~  253 (308)
T TIGR02788       214 CLRMRPDRIILGELRGDEAFDF-IRAVN---TGHPGSITTLHAG  253 (308)
T ss_pred             HhcCCCCeEEEeccCCHHHHHH-HHHHh---cCCCeEEEEEeCC
Confidence            7888999999999988766544 33322   2322 46666643

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.41  E-value=0.023  Score=50.26  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=24.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...++.|.|.+|+||||+|+.+...+..
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~~   44 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLES   44 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999999987754

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

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.029  Score=52.26  Aligned_cols=29  Identities=34%  Similarity=0.474  Sum_probs=25.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +..++|||++|.|||-||+.++..+.-.|
T Consensus       166 Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  166 PKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            56799999999999999999999876654

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

Probab=96.41  E-value=0.002  Score=52.32  Aligned_cols=28  Identities=32%  Similarity=0.494  Sum_probs=20.5

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcccce
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEFDG  196 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f~~  196 (483)
                      |.|+|.+|+|||++|+.++..+...|..
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            6799999999999999999988877754

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.40  E-value=0.035  Score=52.25  Aligned_cols=30  Identities=27%  Similarity=0.387  Sum_probs=25.8

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+++.++|++|+||||++..++..+...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~   99 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQ   99 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            346899999999999999999999877655

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.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.40  E-value=0.018  Score=53.44  Aligned_cols=95  Identities=20%  Similarity=0.213  Sum_probs=63.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ...|.|+|+.|+||||-.....+.+-.+++.++.-.     -++-.++..-.+.++.+     .....+.......++..
T Consensus       125 ~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI-----EDPIE~vh~skkslI~Q-----REvG~dT~sF~~aLraA  194 (353)
T COG2805         125 RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI-----EDPIEYVHESKKSLINQ-----REVGRDTLSFANALRAA  194 (353)
T ss_pred             CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe-----cCchHhhhcchHhhhhH-----HHhcccHHHHHHHHHHH
Confidence            468999999999999888888877766666555432     11111111111222222     12234566778889999


Q ss_pred             HhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          246 LRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      |+..|=+|++-.+.|.+.+..-+..
T Consensus       195 LReDPDVIlvGEmRD~ETi~~ALtA  219 (353)
T COG2805         195 LREDPDVILVGEMRDLETIRLALTA  219 (353)
T ss_pred             hhcCCCEEEEeccccHHHHHHHHHH
Confidence            9999999999999999888765544

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

Probab=96.38  E-value=0.044  Score=51.75  Aligned_cols=36  Identities=19%  Similarity=0.044  Sum_probs=27.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      ..++.|.|.+|+|||+++.+++...... -..++|+.
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            4689999999999999999998876544 33444543

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

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

Probab=96.38  E-value=0.047  Score=49.31  Aligned_cols=60  Identities=23%  Similarity=0.330  Sum_probs=36.9

Q ss_pred             HHHHHHHHhcCceEEEEcCC----C--CHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCCCcceEec
Q 038919          239 INMIGRRLRQKKVLLVIDDV----A--HVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVEEVFKL  301 (483)
Q Consensus       239 ~~~l~~~l~~~~~LlVlDdv----~--~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~~~~~~l  301 (483)
                      .-++.+.+...|-+|+.|+-    |  +...+-.++..+.. ..|..||+.|.++.++..+  ++++.+
T Consensus       150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~~--dr~i~l  215 (226)
T COG1136         150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKYA--DRVIEL  215 (226)
T ss_pred             HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHhC--CEEEEE
Confidence            34566677788889999965    2  22333333332210 3477899999999888754  344444

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.37  E-value=0.028  Score=50.04  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|.|||||++.++..
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

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.

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

Probab=96.37  E-value=0.0077  Score=55.89  Aligned_cols=43  Identities=23%  Similarity=0.277  Sum_probs=33.3

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      .++...+....++..+|+|+|.||+|||||...+..++..+-.
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            3445555555566789999999999999999999988866533

>PRK10867 signal recognition particle protein; Provisional

Probab=96.37  E-value=0.05  Score=54.53  Aligned_cols=29  Identities=28%  Similarity=0.359  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.++.++|++|+||||++..++..+...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            46899999999999999999988877655

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.36  E-value=0.0032  Score=55.01  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=23.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|.|+|++|+||||+|+.++.++.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999999863

>TIGR00235 udk uridine kinase

Probab=96.34  E-value=0.0038  Score=56.43  Aligned_cols=27  Identities=44%  Similarity=0.656  Sum_probs=24.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|++|+|||||++.++..+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457999999999999999999998664

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

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.34  E-value=0.038  Score=49.32  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|.|||||.+.++...
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998754

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.33  E-value=0.0063  Score=53.02  Aligned_cols=27  Identities=33%  Similarity=0.288  Sum_probs=24.0

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ....+|+|.|++|+||||+|..+++..
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999999864

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.32  E-value=0.0035  Score=55.62  Aligned_cols=26  Identities=27%  Similarity=0.291  Sum_probs=23.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++++|.|++|+||||+|+.++..+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999764

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=96.31  E-value=0.014  Score=51.81  Aligned_cols=87  Identities=20%  Similarity=0.263  Sum_probs=49.7

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcc-cCCCccchhhhHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKL-ADNSIRNVYDGINMI  242 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~-~~~~~~~~~~~~~~l  242 (483)
                      +.+-+++|.|+-|+||||++..++..+...+-...-...+.+.+-....-..+.++. ..++.. +.....+..-..+.+
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDlYlthadrl~La~q~-npllq~RGlpGTHD~tlglnVL  126 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRLRLARQV-NPLLQTRGLPGTHDPTLGLNVL  126 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhhhcchHHHHHHHHhc-CchhcccCCCCCCchHHHHHHH
Confidence            457899999999999999999999988776621222222333333222213333332 222222 233345555566666


Q ss_pred             HHHHhcCce
Q 038919          243 GRRLRQKKV  251 (483)
Q Consensus       243 ~~~l~~~~~  251 (483)
                      ....++++-
T Consensus       127 nai~~g~~~  135 (300)
T COG4240         127 NAIARGGPT  135 (300)
T ss_pred             HHHhcCCCC
Confidence            666666644

>PRK00625 shikimate kinase; Provisional

Probab=96.30  E-value=0.0034  Score=54.78  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.|+|++|+||||+++.+++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999998764

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.29  E-value=0.034  Score=53.12  Aligned_cols=87  Identities=23%  Similarity=0.258  Sum_probs=53.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEeccccccc-CCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKYDK-EGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~-~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ..+.|+|++|+||||++..++..+....  ...+.+.+..+..-. ...            .....  ..........++
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~------------v~~~~--~~~~~~~~~~l~  198 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNV------------VQLRT--SDDAISMTRLLK  198 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCE------------EEEEe--cCCCCCHHHHHH
Confidence            4678999999999999999998875532  222333322221100 000            00000  001114556788


Q ss_pred             HHHhcCceEEEEcCCCCHHHHHHH
Q 038919          244 RRLRQKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~~~~~~l  267 (483)
                      ..++..+=.||+..+.+.+.+..+
T Consensus       199 ~aLR~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       199 ATLRLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             HHhcCCCCEEEEeccCCHHHHHHH
Confidence            888999999999999888766543

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.27  E-value=0.0098  Score=54.44  Aligned_cols=37  Identities=16%  Similarity=0.040  Sum_probs=28.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...++.|.|.+|+|||+|+.+++.....+-..++|+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3468999999999999999999887655544455553

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.27  E-value=0.006  Score=52.94  Aligned_cols=24  Identities=42%  Similarity=0.487  Sum_probs=21.0

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhc
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +.|+|.+|+|||||++.+++.++.
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            689999999999999999998854

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.27  E-value=0.015  Score=60.38  Aligned_cols=49  Identities=20%  Similarity=0.125  Sum_probs=34.5

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      ..|.+.|..+-....++.|.|.+|+|||+|+.+++.....+ -..++|+.
T Consensus        18 ~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis   67 (509)
T PRK09302         18 EGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVT   67 (509)
T ss_pred             hhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEE
Confidence            34555565444456899999999999999999998765554 33445543

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.26  E-value=0.028  Score=57.08  Aligned_cols=28  Identities=25%  Similarity=0.266  Sum_probs=24.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++|+|++|+||||++..++..+...
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            5799999999999999999998876543

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.26  E-value=0.049  Score=49.97  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|.|||||.+.++...
T Consensus        29 G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          29 GETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCc
Confidence            4689999999999999999998654

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.

>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=96.26  E-value=0.012  Score=50.61  Aligned_cols=116  Identities=21%  Similarity=0.243  Sum_probs=59.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      .+++|.|..|.|||||++.++..+.. ..+.+++... .... ... ..    ....+.-...  ...-....-.+...+
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~-~~G~i~~~~~-~~~~-~~~-~~----~~~~i~~~~q--lS~G~~~r~~l~~~l   95 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKP-TSGEILIDGK-DIAK-LPL-EE----LRRRIGYVPQ--LSGGQRQRVALARAL   95 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC-CccEEEECCE-Eccc-CCH-HH----HHhceEEEee--CCHHHHHHHHHHHHH
Confidence            68999999999999999999876543 3444554321 1100 000 11    1011000000  111122222344555


Q ss_pred             hcCceEEEEcCCC---CHHHHHHHhcCCCCC-CCCcEEEEEcCCHhHHhh
Q 038919          247 RQKKVLLVIDDVA---HVEQLRRLAGKRDWF-GPGSRIIITTRDEHLLKL  292 (483)
Q Consensus       247 ~~~~~LlVlDdv~---~~~~~~~l~~~~~~~-~~~~~iliTtR~~~~~~~  292 (483)
                      ...+-++++|+..   |......+...+... ..+..++++|.+......
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            5677899999883   333322222222111 225678888887766554

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.24  E-value=0.019  Score=53.29  Aligned_cols=26  Identities=35%  Similarity=0.687  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||++.++....
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~~~   50 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGVLK   50 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            46899999999999999999987543

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.24  E-value=0.041  Score=49.25  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=21.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++++|+|+.|.|||||.+.++..+
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            799999999999999999987643

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.23  E-value=0.046  Score=54.72  Aligned_cols=114  Identities=16%  Similarity=0.135  Sum_probs=69.6

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCC
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADN  230 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~  230 (483)
                      ..+.+.+++..   ..+++.++|+.|+||||....+...+.......+-+.+.-+.. .++.            ... ..
T Consensus       246 ~~~~~~~~~~~---p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~-~~gI------------~Q~-qV  308 (500)
T COG2804         246 QLARLLRLLNR---PQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQ-LPGI------------NQV-QV  308 (500)
T ss_pred             HHHHHHHHHhC---CCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeee-cCCc------------cee-ec
Confidence            44455555553   3579999999999999999999988776655544443222111 1111            000 01


Q ss_pred             CccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcC
Q 038919          231 SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTR  285 (483)
Q Consensus       231 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR  285 (483)
                      ...---.....++..|+..|=+|.+..+.|.+..+-....    .--++.++||=
T Consensus       309 N~k~gltfa~~LRa~LRqDPDvImVGEIRD~ETAeiavqA----alTGHLVlSTl  359 (500)
T COG2804         309 NPKIGLTFARALRAILRQDPDVIMVGEIRDLETAEIAVQA----ALTGHLVLSTL  359 (500)
T ss_pred             ccccCCCHHHHHHHHhccCCCeEEEeccCCHHHHHHHHHH----HhcCCeEeeec
Confidence            1111123456788899999999999999998877665544    22334555543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.23  E-value=0.004  Score=52.26  Aligned_cols=25  Identities=40%  Similarity=0.547  Sum_probs=22.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +|.|.|++|+||||+|+.+++++.-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl   26 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGL   26 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCC
Confidence            5899999999999999999997653

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

Probab=96.22  E-value=0.0085  Score=56.26  Aligned_cols=46  Identities=22%  Similarity=0.197  Sum_probs=36.1

Q ss_pred             HHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          156 KFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       156 ~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .+.+..+-+..+++.|+|.+|+|||+++.+++.+...+...++|+.
T Consensus        13 D~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          13 DEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3344443445689999999999999999999998888877677765

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.22  E-value=0.017  Score=55.77  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +++.|++|.||||+++.+.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            67999999999999999998876

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.21  E-value=0.053  Score=48.52  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .-+-+|-||.|+|||||+..+.-
T Consensus        30 GEvhaiMGPNGsGKSTLa~~i~G   52 (251)
T COG0396          30 GEVHAIMGPNGSGKSTLAYTIMG   52 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46889999999999999999875

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.21  E-value=0.018  Score=51.02  Aligned_cols=21  Identities=33%  Similarity=0.139  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ++.|+|+.|.||||+.+.++-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999883

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.21  E-value=0.0067  Score=56.85  Aligned_cols=37  Identities=16%  Similarity=0.172  Sum_probs=29.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...++.|+|++|+|||+||.+++......-..++|+.
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            4578999999999999999999876554444556654

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

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=96.20  E-value=0.035  Score=50.00  Aligned_cols=21  Identities=33%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      .+++|+|+.|+|||||...++
T Consensus        23 g~~~i~G~NGsGKTTLl~ai~   43 (204)
T cd03240          23 PLTLIVGQNGAGKTTIIEALK   43 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            389999999999999999985

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.20  E-value=0.03  Score=50.92  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.|.|++|+||||+|+.++.++
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.20  E-value=0.0046  Score=54.26  Aligned_cols=25  Identities=28%  Similarity=0.504  Sum_probs=22.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +++.++|++|+||||+|+++.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988754

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

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.20  E-value=0.068  Score=57.61  Aligned_cols=103  Identities=12%  Similarity=0.227  Sum_probs=63.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCC---C---CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGC---N---DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~---~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ...+|-++-+..+.+.+....   .   ....+.+.|+.|+|||.||++++.-+....+..+-+. .+          +.
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD-ms----------e~  630 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD-MS----------EF  630 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec-hh----------hh
Confidence            678888988988888775421   1   3567889999999999999999998765544444333 22          11


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCce-EEEEcCCCC
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKV-LLVIDDVAH  260 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~  260 (483)
                      ++  ...+.+..+ .... .+....+-+.++++|+ +|.||||+.
T Consensus       631 ~e--vskligsp~-gyvG-~e~gg~LteavrrrP~sVVLfdeIEk  671 (898)
T KOG1051|consen  631 QE--VSKLIGSPP-GYVG-KEEGGQLTEAVKRRPYSVVLFEEIEK  671 (898)
T ss_pred             hh--hhhccCCCc-cccc-chhHHHHHHHHhcCCceEEEEechhh
Confidence            11  222222111 1111 1223356666777664 778999964

>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=96.19  E-value=0.0059  Score=53.71  Aligned_cols=26  Identities=35%  Similarity=0.552  Sum_probs=22.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +|+|.|.+|+||||||..+...+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~   26 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVN   26 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            48999999999999999999887643

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

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.18  E-value=0.02  Score=61.16  Aligned_cols=101  Identities=24%  Similarity=0.228  Sum_probs=55.5

Q ss_pred             HHHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCC
Q 038919          153 EKLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNS  231 (483)
Q Consensus       153 ~~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~  231 (483)
                      ..|..+|. .+-...+++-|+|++|+|||||+.+++......-..++|+. ..+...     ....+.+.-.+....-..
T Consensus        46 ~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId-~E~t~~-----~~~A~~lGvDl~~llv~~  119 (790)
T PRK09519         46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID-AEHALD-----PDYAKKLGVDTDSLLVSQ  119 (790)
T ss_pred             HHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC-Cccchh-----HHHHHHcCCChhHeEEec
Confidence            34555565 34344689999999999999999988776555444555654 221111     112222110000000112


Q ss_pred             ccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          232 IRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       232 ~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      ..+.+.....+...++ +..-|||+|.+.
T Consensus       120 ~~~~E~~l~~i~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        120 PDTGEQALEIADMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             CCCHHHHHHHHHHHhhcCCCeEEEEcchh
Confidence            2334445555555554 467799999883

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

Probab=96.18  E-value=0.018  Score=50.65  Aligned_cols=34  Identities=29%  Similarity=0.441  Sum_probs=25.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+++|.|+.|.|||||++.++..... ..+.+.+
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~~~-~~G~i~~   59 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGLEEP-DSGSILI   59 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CceEEEE
Confidence            468999999999999999999865432 3444444

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.18  E-value=0.045  Score=49.24  Aligned_cols=25  Identities=36%  Similarity=0.521  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|.|||||++.++...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998743

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.17  E-value=0.0043  Score=54.16  Aligned_cols=27  Identities=33%  Similarity=0.430  Sum_probs=24.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.+.++|.||+||||+|++++..+++.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            578899999999999999999987765

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.17  E-value=0.032  Score=58.36  Aligned_cols=104  Identities=14%  Similarity=0.077  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD  229 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~  229 (483)
                      ..++.+.+++..   ...+|.|+|+.|+||||+...+.+.+...-...+-+.+.-+.. ..+.            ... .
T Consensus       303 ~~~~~l~~~~~~---~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~-~~~~------------~q~-~  365 (564)
T TIGR02538       303 DQKALFLEAIHK---PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEIN-LPGI------------NQV-N  365 (564)
T ss_pred             HHHHHHHHHHHh---cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceec-CCCc------------eEE-E
Confidence            345556655543   2368999999999999999887776643211122222111110 0010            000 0


Q ss_pred             CCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcC
Q 038919          230 NSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGK  270 (483)
Q Consensus       230 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  270 (483)
                      .....-......++..++..|=.|++.++.+.+.....+..
T Consensus       366 v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd~eta~~a~~a  406 (564)
T TIGR02538       366 VNPKIGLTFAAALRSFLRQDPDIIMVGEIRDLETAEIAIKA  406 (564)
T ss_pred             eccccCCCHHHHHHHHhccCCCEEEeCCCCCHHHHHHHHHH
Confidence            00111124566788899999999999999998877655444

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.

>TIGR00959 ffh signal recognition particle protein

Probab=96.17  E-value=0.061  Score=53.88  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=23.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.++.++|++|+||||++..++..+.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            367999999999999999999988764

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.16  E-value=0.033  Score=50.94  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|.|.|++|+||||+|+.+++++
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999999865

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.16  E-value=0.024  Score=60.50  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|+|..|+|||||++-+..-
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999988763

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

Probab=96.15  E-value=0.042  Score=53.62  Aligned_cols=98  Identities=18%  Similarity=0.210  Sum_probs=49.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh--cccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS--HEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~--~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      .+++.++|+.|+||||-...++.++.  ..-..+.++.     .+....-..-+-+....+++..-....+..++...+.
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT-----tDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~  277 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT-----TDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIE  277 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE-----eccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHH
Confidence            68999999999999976666666554  2223333332     1222221122223344444443333334444443333


Q ss_pred             HHHhcCceEEEEcCCC----C---HHHHHHHhcC
Q 038919          244 RRLRQKKVLLVIDDVA----H---VEQLRRLAGK  270 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~----~---~~~~~~l~~~  270 (483)
                       .+++. =+|.+|-+.    |   .++++.+...
T Consensus       278 -~l~~~-d~ILVDTaGrs~~D~~~i~el~~~~~~  309 (407)
T COG1419         278 -ALRDC-DVILVDTAGRSQYDKEKIEELKELIDV  309 (407)
T ss_pred             -HhhcC-CEEEEeCCCCCccCHHHHHHHHHHHhc
Confidence             23344 366678662    2   3556666655

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.15  E-value=0.035  Score=55.73  Aligned_cols=40  Identities=35%  Similarity=0.520  Sum_probs=29.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK  204 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  204 (483)
                      ..+.++|.|.+|+|||||+..++.....+.+..+.+.-+.
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liG  182 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVG  182 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEec
Confidence            3478999999999999999999887765544444444343

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=96.13  E-value=0.062  Score=48.04  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=19.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +++|+|+.|+|||||++.++.
T Consensus        24 ~~~i~G~nGsGKStll~al~~   44 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRW   44 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            889999999999999998874

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.13  E-value=0.0087  Score=56.73  Aligned_cols=53  Identities=30%  Similarity=0.276  Sum_probs=42.2

Q ss_pred             HhhhchhHHHHH---HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          143 KELVGIESRLEK---LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       143 ~~~vGR~~~l~~---l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      ..|||..+-.+.   +.++..++.-..+.|.|.|++|.|||+||..+++.+...-+
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             CcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            679998765554   55666665555789999999999999999999999876644

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.11  E-value=0.033  Score=56.03  Aligned_cols=40  Identities=35%  Similarity=0.431  Sum_probs=29.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK  204 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  204 (483)
                      ..+.++|.|.+|+|||||+..+++....+....+.+..+.
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liG  181 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVG  181 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCC
Confidence            3478999999999999999999987764433343333343

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.10  E-value=0.11  Score=46.85  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++..
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999998864

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.

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=96.09  E-value=0.058  Score=47.28  Aligned_cols=28  Identities=36%  Similarity=0.590  Sum_probs=24.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +..+++|.|+.|.||||+.+.++.-+..
T Consensus        27 ~Gei~GlLG~NGAGKTT~LRmiatlL~P   54 (245)
T COG4555          27 EGEITGLLGENGAGKTTLLRMIATLLIP   54 (245)
T ss_pred             cceEEEEEcCCCCCchhHHHHHHHhccC
Confidence            4589999999999999999999985543

>PRK15115 response regulator GlrR; Provisional

Probab=96.09  E-value=1.1  Score=45.76  Aligned_cols=47  Identities=19%  Similarity=0.126  Sum_probs=33.2

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|....+..+.+....-......+.|+|.+|+|||++|+.+.+.-
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s  181 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNAS  181 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhc
Confidence            57787777666655443322233567899999999999999887743

>TIGR01351 adk adenylate kinases

Probab=96.08  E-value=0.031  Score=50.55  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.++.++
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998754

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK14528 adenylate kinase; Provisional

Probab=96.08  E-value=0.032  Score=49.42  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=21.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.+.|.|++|+||||+|+.++..+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998765

>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=96.06  E-value=0.011  Score=56.82  Aligned_cols=54  Identities=30%  Similarity=0.266  Sum_probs=38.5

Q ss_pred             HhhhchhHHHHH---HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccce
Q 038919          143 KELVGIESRLEK---LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDG  196 (483)
Q Consensus       143 ~~~vGR~~~l~~---l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~  196 (483)
                      ..+||.....+.   +.++...+.-..+.+.|.|++|.|||+||..+++.+....|.
T Consensus        24 ~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   24 DGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             TTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             ccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            579998876655   445666554346899999999999999999999998877654

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.

>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=96.05  E-value=0.02  Score=56.04  Aligned_cols=102  Identities=20%  Similarity=0.304  Sum_probs=57.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      .++=+-|||..|.|||-|.-.+|+.+...-...+-+         ..++..+.+.+-..    .     .....+..+.+
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---------HEFMLDVHSRLHQL----R-----GQDDPLPQVAD  122 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccccccc---------cHHHHHHHHHHHHH----h-----CCCccHHHHHH
Confidence            356788999999999999999999764321111111         11223333332221    1     11122334556


Q ss_pred             HHhcCceEEEEcCC--C---CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          245 RLRQKKVLLVIDDV--A---HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       245 ~l~~~~~LlVlDdv--~---~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      .+.++..||.||.+  .   +.-.+..|+..+.  ..|. +||+|.|.
T Consensus       123 ~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gv-vlVaTSN~  167 (362)
T PF03969_consen  123 ELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGV-VLVATSNR  167 (362)
T ss_pred             HHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCC-EEEecCCC
Confidence            66777789999977  2   3344555555443  3455 55555554

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

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=96.03  E-value=0.14  Score=46.05  Aligned_cols=27  Identities=22%  Similarity=0.352  Sum_probs=23.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|+.|.|||||++.++....
T Consensus        30 ~G~~~~i~G~nG~GKSTLl~~i~G~~~   56 (204)
T cd03250          30 KGELVAIVGPVGSGKSSLLSALLGELE   56 (204)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcCC
Confidence            346899999999999999999987543

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.03  E-value=0.095  Score=49.52  Aligned_cols=26  Identities=31%  Similarity=0.521  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|+|+.|.|||||++.++.-..
T Consensus        30 Ge~~~IvG~nGsGKSTLl~~L~gl~~   55 (275)
T cd03289          30 GQRVGLLGRTGSGKSTLLSAFLRLLN   55 (275)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhcC
Confidence            46899999999999999999987553

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.02  E-value=0.0054  Score=53.52  Aligned_cols=25  Identities=36%  Similarity=0.429  Sum_probs=22.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .|.|.|++|+||||+|+.+++++.-
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999998754

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.02  E-value=0.025  Score=54.44  Aligned_cols=29  Identities=24%  Similarity=0.259  Sum_probs=25.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.+++++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46899999999999999999999887754

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.02  E-value=0.038  Score=55.29  Aligned_cols=41  Identities=37%  Similarity=0.536  Sum_probs=30.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKE  205 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  205 (483)
                      ..+.++|.|.+|+|||+|+..++.....+....+.+.-+.+
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGE  182 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGE  182 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecC
Confidence            35789999999999999999999877655444444444443

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.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.02  E-value=0.07  Score=49.23  Aligned_cols=25  Identities=28%  Similarity=0.559  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          27 GKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            4689999999999999999998643

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14531 adenylate kinase; Provisional

Probab=96.01  E-value=0.05  Score=48.03  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=21.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.|.|.|++|+||||+++.++..+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999999865

>PF13245 AAA_19: Part of AAA domain

Probab=96.00  E-value=0.0072  Score=44.69  Aligned_cols=24  Identities=25%  Similarity=0.234  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +++.|.|++|.|||+++.+....+
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            678889999999996665555443

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=96.00  E-value=0.0072  Score=52.44  Aligned_cols=45  Identities=24%  Similarity=0.291  Sum_probs=32.5

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +||....+.++.+.+..-......|.|+|..|+||+.+|+.+.+.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            467778888887766543233356789999999999999999884

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 ....

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

Probab=96.00  E-value=0.045  Score=49.87  Aligned_cols=25  Identities=28%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++.-.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998643

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

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

Probab=96.00  E-value=0.011  Score=49.70  Aligned_cols=34  Identities=21%  Similarity=0.302  Sum_probs=25.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFL  200 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~  200 (483)
                      ++|.|+|..|+|||||++.+.+.+..+ +...++.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik   35 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIK   35 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEE
Confidence            479999999999999999999988754 4443333

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=95.99  E-value=0.069  Score=49.33  Aligned_cols=25  Identities=20%  Similarity=0.410  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          29 GKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHhccC
Confidence            4689999999999999999998754

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

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

Probab=95.98  E-value=0.069  Score=47.47  Aligned_cols=22  Identities=32%  Similarity=0.252  Sum_probs=20.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.++.++
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999864

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

>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=95.97  E-value=0.0062  Score=54.78  Aligned_cols=22  Identities=32%  Similarity=0.221  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+++|+|+.|.|||||.+.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            6899999999999999999984

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

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.97  E-value=0.028  Score=58.28  Aligned_cols=50  Identities=24%  Similarity=0.282  Sum_probs=36.3

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +..|.++|..+-....++.|.|.+|+|||+|+.+++......-..++|+.
T Consensus       259 i~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis  308 (509)
T PRK09302        259 VPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFA  308 (509)
T ss_pred             cHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            34455566544344678999999999999999999987655555666664

>PRK15453 phosphoribulokinase; Provisional

Probab=95.97  E-value=0.011  Score=55.04  Aligned_cols=29  Identities=24%  Similarity=0.402  Sum_probs=25.3

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....+|+|.|.+|+||||+|+.+++.+..
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            35689999999999999999999987754

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.96  E-value=0.08  Score=47.55  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||++.++....
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhcccCC
Confidence            46899999999999999999887654

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.96  E-value=0.012  Score=57.88  Aligned_cols=52  Identities=23%  Similarity=0.324  Sum_probs=38.1

Q ss_pred             HhhhchhHHHHHHHHHhhcC------------CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          143 KELVGIESRLEKLKFLMGAG------------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .++||.++..+.+.-.+...            ...++-+.++|++|+|||++|+.++..+...|
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~f   75 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   75 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            56788888777776544421            11246789999999999999999999775443

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.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.95  E-value=0.025  Score=52.80  Aligned_cols=25  Identities=40%  Similarity=0.697  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998754

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.94  E-value=0.077  Score=49.12  Aligned_cols=37  Identities=22%  Similarity=0.181  Sum_probs=28.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      ...++.|.|.+|+|||+++.+++...... -..++|+.
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            45799999999999999999998876554 33444443

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.93  E-value=0.007  Score=53.95  Aligned_cols=26  Identities=35%  Similarity=0.321  Sum_probs=23.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .++.|+|++|+|||+++.+++..+..
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            58999999999999999999987654

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

Probab=95.93  E-value=0.0053  Score=54.14  Aligned_cols=23  Identities=39%  Similarity=0.716  Sum_probs=21.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999875

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.93  E-value=0.022  Score=55.00  Aligned_cols=31  Identities=26%  Similarity=0.387  Sum_probs=26.7

Q ss_pred             CCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          163 CNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       163 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+...+|+|.|.+|+|||||+..+...+...
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3457899999999999999999998887654

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.93  E-value=0.061  Score=48.79  Aligned_cols=25  Identities=40%  Similarity=0.492  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|.|||||++.++...
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998643

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.92  E-value=0.054  Score=49.11  Aligned_cols=25  Identities=32%  Similarity=0.559  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999998743

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>cd01858 NGP_1 NGP-1

Probab=95.92  E-value=0.073  Score=45.63  Aligned_cols=42  Identities=17%  Similarity=0.277  Sum_probs=27.8

Q ss_pred             chhHHHHHHHHHhhcCC-CCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          147 GIESRLEKLKFLMGAGC-NDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       147 GR~~~l~~l~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.+..++.+.+.+.... .....+++.|++|+|||||...+..
T Consensus        82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~  124 (157)
T cd01858          82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRS  124 (157)
T ss_pred             cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhc
Confidence            44444555555443211 1235678999999999999999875

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>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=95.92  E-value=0.006  Score=51.57  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=21.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +|.|.|++|+||||+|+.++.++.
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998753

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

Probab=95.92  E-value=0.0055  Score=52.18  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=20.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++.|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998863

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

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.91  E-value=0.11  Score=49.00  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        39 Ge~~~l~G~nGsGKSTLl~~l~Gl~   63 (269)
T PRK14259         39 GKVTALIGPSGCGKSTVLRSLNRMN   63 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            4689999999999999999998643

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

Probab=95.91  E-value=0.0066  Score=53.40  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=22.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK13764 ATPase; Provisional

Probab=95.90  E-value=0.031  Score=58.11  Aligned_cols=85  Identities=13%  Similarity=0.105  Sum_probs=49.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      ..+.|+|++|+||||++..+++.+.........+.+..+..-....         .++ .   ....+...   .....|
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i---------~q~-~---~~~~~~~~---~~~~lL  321 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEI---------TQY-S---KLEGSMEE---TADILL  321 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcc---------eEE-e---eccccHHH---HHHHHH
Confidence            4589999999999999999998876543222244332222111000         000 0   00011111   222336


Q ss_pred             hcCceEEEEcCCCCHHHHHHH
Q 038919          247 RQKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~~~~~~l  267 (483)
                      +.+|=.+++|.+.+.+.++.+
T Consensus       322 R~rPD~IivGEiRd~Et~~~~  342 (602)
T PRK13764        322 LVRPDYTIYDEMRKTEDFKIF  342 (602)
T ss_pred             hhCCCEEEECCCCCHHHHHHH
Confidence            788999999999998887764

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.90  E-value=0.056  Score=55.69  Aligned_cols=28  Identities=29%  Similarity=0.487  Sum_probs=23.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...++|+|..|.|||||.+.++-.....
T Consensus        29 G~riGLvG~NGaGKSTLLkilaG~~~~~   56 (530)
T COG0488          29 GERIGLVGRNGAGKSTLLKILAGELEPD   56 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCcCC
Confidence            3579999999999999999999766443

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.90  E-value=0.39  Score=45.34  Aligned_cols=126  Identities=11%  Similarity=0.050  Sum_probs=68.2

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-------------cceeEEEEecccccccCCcHHHHHHH
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-------------FDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-------------f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +.|...+..+ .-.....++|+.|+||+++|..++..+--.             .+...++...                
T Consensus         7 ~~L~~~i~~~-rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~----------------   69 (290)
T PRK05917          7 EALIQRVRDQ-KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQ----------------   69 (290)
T ss_pred             HHHHHHHHcC-CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecC----------------
Confidence            4455555532 225678899999999999999999865321             1111111100                


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHh-----cCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHHh
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLR-----QKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLLK  291 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~  291 (483)
                              .....-.+++ +..+.+.+.     ++.=++|+|+++.  .+....++..+..-.+++.+|++|.++ .+++
T Consensus        70 --------~~~~~I~idq-iR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~  140 (290)
T PRK05917         70 --------GKGRLHSIET-PRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPP  140 (290)
T ss_pred             --------CCCCcCcHHH-HHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcH
Confidence                    0000001111 122222222     3445889999974  456666666655546677776666654 3433


Q ss_pred             h-CCCcceEecCCC
Q 038919          292 L-HRVEEVFKLEAL  304 (483)
Q Consensus       292 ~-~~~~~~~~l~~L  304 (483)
                      . ......+.+.++
T Consensus       141 TI~SRcq~~~~~~~  154 (290)
T PRK05917        141 TIRSRSLSIHIPME  154 (290)
T ss_pred             HHHhcceEEEccch
Confidence            3 233456777765

>PRK06217 hypothetical protein; Validated

Probab=95.89  E-value=0.0061  Score=53.87  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|+|.|.+|+||||||+++...+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            489999999999999999998763

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.89  E-value=0.052  Score=50.76  Aligned_cols=25  Identities=28%  Similarity=0.498  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998754

>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=95.89  E-value=0.0056  Score=55.75  Aligned_cols=25  Identities=48%  Similarity=0.668  Sum_probs=22.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +|+|.|.+|+||||||+.+...+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            4899999999999999999988753

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

>PHA02244 ATPase-like protein

Probab=95.86  E-value=0.024  Score=54.91  Aligned_cols=46  Identities=13%  Similarity=0.211  Sum_probs=31.8

Q ss_pred             HhhhchhHHHH----HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLE----KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~----~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|......    .+..++..+    ..|.|+|++|+|||+||+++++....
T Consensus        96 ~~~ig~sp~~~~~~~ri~r~l~~~----~PVLL~GppGtGKTtLA~aLA~~lg~  145 (383)
T PHA02244         96 TTKIASNPTFHYETADIAKIVNAN----IPVFLKGGAGSGKNHIAEQIAEALDL  145 (383)
T ss_pred             CcccCCCHHHHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45667655443    344444432    34788999999999999999987543

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.86  E-value=0.0062  Score=54.61  Aligned_cols=23  Identities=43%  Similarity=0.657  Sum_probs=21.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.85  E-value=0.015  Score=52.87  Aligned_cols=24  Identities=25%  Similarity=-0.035  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..++++|.|+.|.||||+.+.++-
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346889999999999999998886

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

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

Probab=95.84  E-value=0.029  Score=51.79  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.++.
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            47899999999999999999987

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.84  E-value=0.016  Score=50.32  Aligned_cols=29  Identities=24%  Similarity=0.360  Sum_probs=25.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++++|+|..|+|||||++.+...+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45799999999999999999999887653

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.83  E-value=0.062  Score=48.05  Aligned_cols=107  Identities=16%  Similarity=0.137  Sum_probs=56.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc----cceeEEEEeccc-cccc-CCcHHHHHHHHHHHHhcccCCCccchhhhHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE----FDGSSFLADVKE-KYDK-EGSVISLQKQLISDLLKLADNSIRNVYDGINM  241 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~----f~~~~~~~~~~~-~~~~-~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~  241 (483)
                      -..|.|+||+|||||.+.+++-++..    .+..+-+.+-+. .... .+. .+  ..+...      ....+..-...-
T Consensus       139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gv-pq--~~~g~R------~dVld~cpk~~g  209 (308)
T COG3854         139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGV-PQ--HGRGRR------MDVLDPCPKAEG  209 (308)
T ss_pred             eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCC-ch--hhhhhh------hhhcccchHHHH
Confidence            36789999999999999999876654    233344432221 1100 000 00  000000      000111111111


Q ss_pred             HHHHH-hcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCC
Q 038919          242 IGRRL-RQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRD  286 (483)
Q Consensus       242 l~~~l-~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~  286 (483)
                      +-... ...|=++|+|.+-..++..++...+   ..|.+++.|..-
T Consensus       210 mmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG  252 (308)
T COG3854         210 MMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHG  252 (308)
T ss_pred             HHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeecc
Confidence            11222 3467899999997766655555443   468888877763

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

Probab=95.83  E-value=0.007  Score=51.50  Aligned_cols=20  Identities=40%  Similarity=0.704  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCChhHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~  187 (483)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.83  E-value=0.079  Score=46.70  Aligned_cols=26  Identities=35%  Similarity=0.588  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|.|||||.+.++....
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGLRP   51 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            46899999999999999999987543

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

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

Probab=95.82  E-value=0.02  Score=59.77  Aligned_cols=50  Identities=16%  Similarity=0.191  Sum_probs=42.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +..+-|.+..+.|.++.........+|.|+|++|+||||+|+.++.++..
T Consensus       369 P~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            67788888888888887765555679999999999999999999998865

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.82  E-value=0.012  Score=57.31  Aligned_cols=49  Identities=33%  Similarity=0.351  Sum_probs=39.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      ..++|.+..+..+...+..+    +.+.+.|++|+|||+||+.++..+...|.
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~~   72 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPFV   72 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCeE
Confidence            34888888888877766643    46899999999999999999998875543

>PF13479 AAA_24: AAA domain

Probab=95.80  E-value=0.023  Score=51.59  Aligned_cols=20  Identities=50%  Similarity=0.541  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCCChhHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVV  186 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~  186 (483)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46899999999999999987

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.80  E-value=0.18  Score=45.92  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|.|||||++.++..
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468999999999999999998864

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=95.80  E-value=0.014  Score=50.83  Aligned_cols=38  Identities=26%  Similarity=0.386  Sum_probs=33.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      ...|.|-|++|+|||+|..+.+..++++|...+.-.++
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di   50 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDI   50 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEecee
Confidence            47899999999999999999999999998877766544

>PRK14529 adenylate kinase; Provisional

Probab=95.79  E-value=0.069  Score=48.52  Aligned_cols=91  Identities=21%  Similarity=0.193  Sum_probs=47.8

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhccc-ceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEF-DGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR  247 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~  247 (483)
                      |.|.|++|+||||+++.++.++.-.+ ..+-.+   ++............+.+    +...  ...+.+.....+.+.+.
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~is~gdll---r~~i~~~t~lg~~i~~~----i~~G--~lvpdei~~~lv~~~l~   73 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHIESGAIF---REHIGGGTELGKKAKEY----IDRG--DLVPDDITIPMILETLK   73 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCcccchhh---hhhccCCChHHHHHHHH----Hhcc--CcchHHHHHHHHHHHHh
Confidence            78899999999999999998764321 111111   11111111112222222    2221  22233444555666664


Q ss_pred             cC-ceEEEEcCC-CCHHHHHHHh
Q 038919          248 QK-KVLLVIDDV-AHVEQLRRLA  268 (483)
Q Consensus       248 ~~-~~LlVlDdv-~~~~~~~~l~  268 (483)
                      +. .-=+|||.+ .+.+|.+.|.
T Consensus        74 ~~~~~g~iLDGfPRt~~Qa~~l~   96 (223)
T PRK14529         74 QDGKNGWLLDGFPRNKVQAEKLW   96 (223)
T ss_pred             ccCCCcEEEeCCCCCHHHHHHHH
Confidence            32 345899999 4666655543

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=95.79  E-value=0.032  Score=53.61  Aligned_cols=86  Identities=24%  Similarity=0.222  Sum_probs=51.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc-ee-EEEEecccccc-cCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD-GS-SFLADVKEKYD-KEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~-~~~~~~~~~~~-~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ..+.|+|..|+||||++.++...+....+ .. +-+.+..+..- ....            ..   ....+.......++
T Consensus       145 ~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~------------v~---l~~~~~~~~~~lv~  209 (323)
T PRK13833        145 LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENA------------VA---LHTSDTVDMARLLK  209 (323)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCE------------EE---eccCCCcCHHHHHH
Confidence            35789999999999999999887643221 12 22222211110 0000            00   00111223456678


Q ss_pred             HHHhcCceEEEEcCCCCHHHHHHH
Q 038919          244 RRLRQKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~~~~~~l  267 (483)
                      ..++..+-.||+..+.+.+.+..+
T Consensus       210 ~aLR~~PD~IivGEiRg~ea~~~l  233 (323)
T PRK13833        210 STMRLRPDRIIVGEVRDGAALTLL  233 (323)
T ss_pred             HHhCCCCCEEEEeecCCHHHHHHH
Confidence            888999999999999888766543

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

Probab=95.78  E-value=0.011  Score=52.18  Aligned_cols=35  Identities=29%  Similarity=0.314  Sum_probs=29.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .++++|+|+.|+|||||+..+.......|...+..
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            37899999999999999999999888777544443

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 ....

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.78  E-value=0.027  Score=57.40  Aligned_cols=41  Identities=20%  Similarity=0.053  Sum_probs=29.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccc-eeEEEEeccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFD-GSSFLADVKE  205 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~  205 (483)
                      ..+..+|+|++|+|||||+..+++.+...++ ..+++.-+.+
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLIgE  456 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDE  456 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEEeC
Confidence            3467899999999999999999998755333 3344444443

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.78  E-value=0.015  Score=60.35  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+++++|++|.||||+|.-+.+
T Consensus       495 e~vALVGPSGsGKSTiasLL~r  516 (716)
T KOG0058|consen  495 EVVALVGPSGSGKSTIASLLLR  516 (716)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999987665

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.77  E-value=0.007  Score=50.67  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=21.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .++|+|++|+|||||++.++..+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            37899999999999999999865443

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.76  E-value=0.15  Score=50.92  Aligned_cols=29  Identities=24%  Similarity=0.265  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.+|.++|++|+||||++..++..+...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999998876554

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.75  E-value=0.0093  Score=53.79  Aligned_cols=29  Identities=17%  Similarity=0.194  Sum_probs=24.1

Q ss_pred             cCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          161 AGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       161 ~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ......+.++|+|++|+|||||+..+...
T Consensus         8 ~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          8 NKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34456789999999999999999998754

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=95.75  E-value=0.014  Score=52.46  Aligned_cols=21  Identities=29%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      ++++|+|+.|.|||||.+.+.
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            689999999999999999988

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

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

Probab=95.75  E-value=0.017  Score=51.77  Aligned_cols=37  Identities=30%  Similarity=0.423  Sum_probs=28.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK  204 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  204 (483)
                      .|+|+|-||+||||+|..++.++.+.-...+...+..
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVDaD   38 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVDAD   38 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEeCC
Confidence            5899999999999999997877766544455655443

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.73  E-value=0.031  Score=59.18  Aligned_cols=24  Identities=29%  Similarity=0.502  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|+|..|+|||||++.+...+
T Consensus       362 ~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        362 QTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCc
Confidence            579999999999999999888643

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.73  E-value=0.044  Score=57.26  Aligned_cols=25  Identities=32%  Similarity=0.466  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++|+|+.|+|||||++.+..-+
T Consensus       361 G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       361 GERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3579999999999999999987643

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.72  E-value=0.013  Score=56.24  Aligned_cols=51  Identities=24%  Similarity=0.363  Sum_probs=43.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCC----CCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGAGC----NDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..|+|.++.++++.+.|....    ...+++.+.||.|.|||||+..+.+-+...
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            479999999999999887522    347899999999999999999998877765

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

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.72  E-value=0.046  Score=50.61  Aligned_cols=26  Identities=31%  Similarity=0.533  Sum_probs=23.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +|+|.|.+|+||||++..+.+.+...
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~   26 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFARE   26 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999999999887654

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.72  E-value=0.0093  Score=49.27  Aligned_cols=25  Identities=32%  Similarity=0.295  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+-|.|+|.||+|||||+.+++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3568999999999999999999743

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.70  E-value=0.027  Score=53.27  Aligned_cols=28  Identities=36%  Similarity=0.434  Sum_probs=23.9

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+.+|+|.|.+|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3468999999999999999988776655

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

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=95.70  E-value=0.019  Score=55.62  Aligned_cols=25  Identities=32%  Similarity=0.501  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .-++.|+|.+|.||||+.+.+....
T Consensus       409 GdvvaVvGqSGaGKttllRmi~G~~  433 (593)
T COG2401         409 GDVVAVVGQSGAGKTTLLRMILGAQ  433 (593)
T ss_pred             CCeEEEEecCCCCcchHHHHHHHHh
Confidence            3579999999999999999988654

>PRK13949 shikimate kinase; Provisional

Probab=95.70  E-value=0.0089  Score=52.03  Aligned_cols=24  Identities=33%  Similarity=0.382  Sum_probs=21.8

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.|+|++|+||||+++.++..+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998764

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.69  E-value=0.019  Score=60.38  Aligned_cols=61  Identities=21%  Similarity=0.391  Sum_probs=47.0

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEec
Q 038919          139 SEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADV  203 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~  203 (483)
                      ..+...++|.++.++.+...+...    +.+.++|++|+|||++|+.+++.+... |...+++.|.
T Consensus        14 ~~~~~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~   75 (608)
T TIGR00764        14 ERLIDQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNP   75 (608)
T ss_pred             hhhHhhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCC
Confidence            356689999999998888887743    356699999999999999999987654 3444555544

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

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

Probab=95.69  E-value=0.014  Score=53.30  Aligned_cols=39  Identities=21%  Similarity=0.327  Sum_probs=29.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK  204 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  204 (483)
                      .+.++.++||+|+||||+.+.+...+...... .++.|+.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p-pYviNLD   56 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP-PYVINLD   56 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC-CeEEeCC
Confidence            35688899999999999999999888776543 3344443

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.69  E-value=0.061  Score=53.83  Aligned_cols=27  Identities=26%  Similarity=0.384  Sum_probs=23.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+.++|.|.+|+|||+|+.+++....
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~  163 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMV  163 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH
Confidence            347899999999999999999987764

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=95.69  E-value=0.078  Score=57.40  Aligned_cols=105  Identities=16%  Similarity=0.146  Sum_probs=54.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH-
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR-  245 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-  245 (483)
                      +++.|.|.+|+||||++..+...+...-..+.+.. .          .......+....+   ....++......+... 
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~A-p----------Tg~Aa~~L~~~~g---~~a~Ti~~~~~~~~~~~  434 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAA-L----------SGKAAEGLQAESG---IESRTLASLEYAWANGR  434 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEe-C----------cHHHHHHHHhccC---CceeeHHHHHhhhccCc
Confidence            58899999999999999999877665422222221 1          1112222222111   1112222211111000 


Q ss_pred             -HhcCceEEEEcCCC--CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          246 -LRQKKVLLVIDDVA--HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       246 -l~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                       .-.+.-|||+|++.  +...+..++....  ..|+++|+.--..
T Consensus       435 ~~~~~~~llIvDEasMv~~~~~~~Ll~~~~--~~~~kliLVGD~~  477 (744)
T TIGR02768       435 DLLSDKDVLVIDEAGMVGSRQMARVLKEAE--EAGAKVVLVGDPE  477 (744)
T ss_pred             ccCCCCcEEEEECcccCCHHHHHHHHHHHH--hcCCEEEEECChH
Confidence             01245699999994  4455556654322  3578888776433

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.68  E-value=0.01  Score=52.90  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++.|.|.+|+||||+|..++.++
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999874

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.67  E-value=0.0096  Score=50.81  Aligned_cols=22  Identities=41%  Similarity=0.604  Sum_probs=20.5

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|+|++|+||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999876

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.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.66  E-value=0.063  Score=54.19  Aligned_cols=41  Identities=32%  Similarity=0.467  Sum_probs=28.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKE  205 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  205 (483)
                      ..+.++|.|.+|+|||+|+..++..+.......+.+.-+.+
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~~~~dv~V~~lIGE  200 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGE  200 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHHhcCCeEEEEEecc
Confidence            35789999999999999999988875433233344443443

>PRK13948 shikimate kinase; Provisional

Probab=95.65  E-value=0.011  Score=52.06  Aligned_cols=28  Identities=18%  Similarity=0.277  Sum_probs=24.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....|.++|+.|+||||+++.+++++..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~   36 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALML   36 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3578999999999999999999987643

>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=95.63  E-value=0.023  Score=51.29  Aligned_cols=28  Identities=32%  Similarity=0.501  Sum_probs=24.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.++|.|.+|+|||+|+.++++.....
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~~~d   42 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQDAD   42 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHCTTT
T ss_pred             CCEEEEEcCcccccchhhHHHHhccccc
Confidence            3679999999999999999999977543

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 ....

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

Probab=95.63  E-value=0.017  Score=56.99  Aligned_cols=51  Identities=22%  Similarity=0.285  Sum_probs=38.1

Q ss_pred             HhhhchhHHHHHHHHHhhc---------CC---CCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGA---------GC---NDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---------~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++|.+...+.+..++..         ..   .....+.++|++|+|||+||+.++..+...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~   77 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCCh
Confidence            4578888888887766632         00   114678999999999999999999876543

>PRK14530 adenylate kinase; Provisional

Probab=95.63  E-value=0.0098  Score=54.09  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=21.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.|.|.|++|+||||+|+.++.++
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999866

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.63  E-value=0.017  Score=52.20  Aligned_cols=30  Identities=23%  Similarity=0.310  Sum_probs=26.2

Q ss_pred             CCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          163 CNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       163 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++++++++|..|+|||||..++.+....
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~~~~   48 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDNLKD   48 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            346899999999999999999999987654

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

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

Probab=95.63  E-value=0.023  Score=52.02  Aligned_cols=37  Identities=24%  Similarity=0.266  Sum_probs=25.7

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.+.+...+...    .+..|+|++|.|||+++..+...+
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            3455566666532    378999999999998888877766

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=95.62  E-value=0.048  Score=59.16  Aligned_cols=24  Identities=25%  Similarity=0.138  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +.+++.|+|+.+.||||+.+.++-
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl  349 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGL  349 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHH
Confidence            357899999999999999998874

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.61  E-value=0.01  Score=52.35  Aligned_cols=26  Identities=38%  Similarity=0.483  Sum_probs=23.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|+|-||=|+||||||+.+++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            36899999999999999999999876

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.61  E-value=0.024  Score=59.62  Aligned_cols=60  Identities=22%  Similarity=0.394  Sum_probs=47.1

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEe
Q 038919          139 SEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLAD  202 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~  202 (483)
                      +.....++|.+..++.|...+...    +.+.|+|++|+||||+|+.+++.+... +....|..+
T Consensus        27 ~~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n   87 (637)
T PRK13765         27 ERLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN   87 (637)
T ss_pred             cccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence            345588999999999888877743    468999999999999999999876433 355666664

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.60  E-value=0.0078  Score=52.04  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++|+|++|+||||+|+.+...+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999875

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.59  E-value=0.014  Score=53.57  Aligned_cols=47  Identities=28%  Similarity=0.230  Sum_probs=32.4

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      |.++|..+-....++.|.|++|+|||+|+.+++...... -..++|+.
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            445554433346799999999999999999988765544 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 ....

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.58  E-value=0.067  Score=56.72  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++|+|+.|+|||||++-+...+
T Consensus       376 G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        376 GQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4679999999999999999988765

>PRK14527 adenylate kinase; Provisional

Probab=95.56  E-value=0.012  Score=52.30  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=23.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++.|.|++|+||||+|+.+++++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998765

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.56  E-value=0.082  Score=49.29  Aligned_cols=26  Identities=23%  Similarity=0.220  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.++|.|-+|+|||+|+..++++..
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~~   94 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQAG   94 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhhh
Confidence            46789999999999999999887653

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.55  E-value=0.046  Score=44.33  Aligned_cols=48  Identities=17%  Similarity=0.302  Sum_probs=34.0

Q ss_pred             HhhhchhHH----HHHHHHHhhcC-CCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESR----LEKLKFLMGAG-CNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~----l~~l~~~L~~~-~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+++|-.-.    ++.|...+... +.++-++..+|.+|+|||-+++.+++.+
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            456666544    44455555443 3446788899999999999999999874

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

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=95.51  E-value=0.032  Score=59.05  Aligned_cols=25  Identities=24%  Similarity=0.460  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++|+|+.|+|||||++.++..+
T Consensus       369 G~~~aIvG~sGsGKSTLl~ll~gl~  393 (582)
T PRK11176        369 GKTVALVGRSGSGKSTIANLLTRFY  393 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3568999999999999999998743

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=95.51  E-value=0.036  Score=57.20  Aligned_cols=47  Identities=19%  Similarity=0.232  Sum_probs=38.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..++|....++++.+.+..-......|.|+|.+|+||+.+|+.+.+.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            46899999998888876542233467999999999999999999876

>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=95.50  E-value=0.0099  Score=55.98  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=22.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +-+.++|++|+|||++++.+...+..
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

>PRK13946 shikimate kinase; Provisional

Probab=95.49  E-value=0.012  Score=52.05  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=23.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.|.+.|++|+||||+++.+++++.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999999873

>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=95.48  E-value=0.034  Score=49.83  Aligned_cols=28  Identities=36%  Similarity=0.443  Sum_probs=22.0

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+.++.|.|.+|+||||++..+...+.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~   40 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG   40 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc
Confidence            4578889999999999999999988664

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.48  E-value=0.018  Score=49.30  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=23.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +++|+|+.|+|||||+..+...++.+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999988765

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.48  E-value=0.03  Score=51.28  Aligned_cols=48  Identities=21%  Similarity=0.255  Sum_probs=33.2

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|.+.|..+-....++.|.|.+|+|||+++.+++......-..++|+.
T Consensus         4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            344555443334679999999999999999999876544433444443

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.47  E-value=0.023  Score=56.73  Aligned_cols=50  Identities=24%  Similarity=0.248  Sum_probs=35.8

Q ss_pred             HhhhchhHHHHHHHHHhhc-------C-C------CCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGA-------G-C------NDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-------~-~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+||.+...+.+...+..       . .      .....+.++|++|+|||+||+.++..+..
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~  134 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV  134 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4678888888877554311       0 0      01356899999999999999999986643

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=95.46  E-value=0.039  Score=53.53  Aligned_cols=92  Identities=20%  Similarity=0.150  Sum_probs=53.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc--cCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD--KEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ...+.|+|..|+||||++..+...+.... ..+.+.+..+..-  ..+. ..        +...............+.++
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~ip~~~-ri~tiEd~~El~l~~~~n~-~~--------~~~~~~~~~~~~~~~~~ll~  229 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREIPAIE-RLITVEDAREIVLSNHPNR-VH--------LLASKGGQGRAKVTTQDLIE  229 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhCCCCC-eEEEecCCCccccccCCCE-EE--------EEecCCCCCcCcCcHHHHHH
Confidence            35799999999999999999988765432 2222222211110  0000 00        00000001111123456778


Q ss_pred             HHHhcCceEEEEcCCCCHHHHHHH
Q 038919          244 RRLRQKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~~~~~~l  267 (483)
                      ..++..+=.||+..+.+.+.+..+
T Consensus       230 ~~LR~~PD~IivGEiR~~ea~~~l  253 (332)
T PRK13900        230 ACLRLRPDRIIVGELRGAEAFSFL  253 (332)
T ss_pred             HHhccCCCeEEEEecCCHHHHHHH
Confidence            888999999999999888776543

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=95.46  E-value=0.088  Score=50.60  Aligned_cols=25  Identities=36%  Similarity=0.565  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++.-+
T Consensus        19 Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        19 GEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998744

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PLN02674 adenylate kinase

Probab=95.46  E-value=0.12  Score=47.60  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+.|.|++|+||||+|+.++.++
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHc
Confidence            3568899999999999999998854

>PLN02200 adenylate kinase family protein

Probab=95.45  E-value=0.014  Score=53.62  Aligned_cols=25  Identities=20%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++.|.|++|+||||+|+.++..+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998854

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.45  E-value=0.12  Score=45.97  Aligned_cols=26  Identities=38%  Similarity=0.516  Sum_probs=23.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..|+|.|..|+||||+++.+++.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999988765

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	483
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		1e-26
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		3e-24

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score =  117 bits (293), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 62/128 (48%), Positives = 80/128 (62%), Gaps = 3/128 (2%)
Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            FIS LY  L  + I  F+DDK+LE G   SP L   IE SR +++V+S NYA+S+WCLD
Sbjct: 23  NFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLD 82
Query: 61  ELVKIVEYKNRED-QIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           ELV I++++ +    + PIFY VEP  VR QT    E F KH    R++ EKV KWR AL
Sbjct: 83  ELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS--REDPEKVLKWRQAL 140
Query: 120 KVVANISG 127
              A +SG
Sbjct: 141 TNFAQLSG 148

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 56/131 (42%), Positives = 81/131 (61%), Gaps = 4/131 (3%)
Query: 2   FISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDE 61
           F   LY +L    I+ FRDD +L KG  I PNLL+AI++S+I + ++S  YA S WCL E
Sbjct: 51  FTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLME 110
Query: 62  LVKIVEYKNREDQ--IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           L +IV  +  + +  I PIFY V+P+ VR QT  + +AF KH   F  + + +Q W+ AL
Sbjct: 111 LAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKF--DGQTIQNWKDAL 168
Query: 120 KVVANISGWEL 130
           K V ++ GW +
Sbjct: 169 KKVGDLKGWHI 179

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	483
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	2e-75
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	2e-74
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	1e-58
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	5e-46
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-43
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-07
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-39
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	6e-21
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	3e-11
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	3e-05
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	1e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-04

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  233 bits (597), Expect = 2e-75
 Identities = 64/147 (43%), Positives = 87/147 (59%), Gaps = 7/147 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            FIS LY  L  + I  F+DDK+LE G   SP L   IE SR +++V+S NYA+S+WCLD
Sbjct: 23  NFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLD 82

Query: 61  ELVKIVEYKNREDQI-FPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           ELV I++++ +      PIFY VEP  VR QT    E F KH    R++ EKV KWR AL
Sbjct: 83  ELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS--REDPEKVLKWRQAL 140

Query: 120 KVVANISGWELKDSKIRTESEILKELV 146
              A +SG    D     +S+++ ++ 
Sbjct: 141 TNFAQLSGDCSGDD----DSKLVDKIA 163

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  232 bits (593), Expect = 2e-74
 Identities = 59/157 (37%), Positives = 90/157 (57%), Gaps = 7/157 (4%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F   LY +L    I+ FRDD +L KG  I PNLL+AI++S+I + ++S  YA S WCL 
Sbjct: 50  QFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLM 109

Query: 61  ELVKIVEYKNREDQ--IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHA 118
           EL +IV  +  + +  I PIFY V+P+ VR QT  + +AF KH    + + + +Q W+ A
Sbjct: 110 ELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN--KFDGQTIQNWKDA 167

Query: 119 LKVVANISGWELKDSKIRTESEILKELVG-IESRLEK 154
           LK V ++ GW +  +    +  I  ++   I S + K
Sbjct: 168 LKKVGDLKGWHIGKN--DKQGAIADKVSADIWSHISK 202

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  189 bits (482), Expect = 1e-58
 Identities = 26/120 (21%), Positives = 51/120 (42%), Gaps = 3/120 (2%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
            F+  L   L   G  V+ DD  L  G S+  ++ K +  SR  I+VLS ++    W   
Sbjct: 34  DFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQK 93

Query: 61  ELVKIVEYKNREDQ-IFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL 119
           EL  + + ++     I PI++ V    V   + +  +    +      +++++     A+
Sbjct: 94  ELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAFNTS--TKSVDEIVADLMAI 151

>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 =  167 bits (424), Expect = 5e-46
 Identities = 59/443 (13%), Positives = 126/443 (28%), Gaps = 45/443 (10%)

Query: 58  CLDELVKIVEYKNREDQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRH 117
             + + K+     R      I+      +            +   +F  D I+       
Sbjct: 40  HSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPD 99

Query: 118 ALK---VVANISGWELKDSKIRTESEILKELVGIESRLEKL-KFLMGAGCNDVRMIGIWG 173
            L+   +    S   L    +             E  ++++ K L      D   + + G
Sbjct: 100 LLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHG 159

Query: 174 MGGLGKTTLARVVY----DLISHEFDGSSFL----ADVKEKYDKEGSVISLQKQLISDLL 225
             G GK+ +A         LI   +D   +L       K  +D    ++ + K     L 
Sbjct: 160 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 219

Query: 226 KLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTR 285
             +   + +V     +    + +   L V DDV   E +R             R ++TTR
Sbjct: 220 FPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIR------WAQELRLRCLVTTR 273

Query: 286 DEHLLK-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA 344
           D  +     +  E  ++ +L  DE +              E+   +    +  + G P  
Sbjct: 274 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPAT 332

Query: 345 LKVLGSFLFGRPVDEWTSTLERLKREP-----------ENEILDILQISFDGLKEAEKEI 393
           L +       +  ++      +L+                 +   LQ   + L + ++  
Sbjct: 333 LMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSA 392

Query: 394 FLDVACFFKGEK-----------RDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLW 442
                    G              D  S   +    E    +  L ++  L   +   + 
Sbjct: 393 LAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVL 452

Query: 443 ---MHDLLLEMGRQIVRRQSPRE 462
              +  ++    + +V  Q+   
Sbjct: 453 TFKIDHIIHMFLKHVVDAQTIAN 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 =  164 bits (415), Expect = 1e-43
 Identities = 84/488 (17%), Positives = 176/488 (36%), Gaps = 108/488 (22%)

Query: 15  IYVFRDD--KQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNRE 72
           + VF D      +          K +++   SI+       S      E+  I+  K+  
Sbjct: 22  LSVFEDAFVDNFD---------CKDVQDMPKSIL-------SKE----EIDHIIMSKDAV 61

Query: 73  DQIFPIFYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKW-RHALKVVANISGWELK 131
                +F+    T++ KQ           ++F  + +    K+    +K          +
Sbjct: 62  SGTLRLFW----TLLSKQEEMV-------QKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110

Query: 132 D-----SKIRTESEILKEL-VGIESRLEKLKFLMGAGCN--DVRMIGIWGMGGLGKTTLA 183
                  ++  ++++  +  V   SRL+    L  A       + + I G+ G GKT +A
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNV---SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167

Query: 184 RVVY--DLISHEFDGSSFLADVKEKYDKEGSVISLQK---QLISDLLKLADNSIRNVYDG 238
             V     +  + D   F  ++K     E  +  LQK   Q+  +    +D+S  N+   
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS-SNIKLR 226

Query: 239 INMIGRRLRQ-------KKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL-- 289
           I+ I   LR+       +  LLV+ +V + +         + F    +I++TTR + +  
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW-------NAFNLSCKILLTTRFKQVTD 279

Query: 290 ----LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQK---PREEYVHLSQLVVNYAGGLP 342
                    +        LT DE   L  LK  + +    PRE                P
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLL-LKYLDCRPQDLPREV-----------LTTNP 327

Query: 343 LALKVLGSFLFGRPVDEWTSTLERLKREPENEILDILQISFDGLKEAE-KEIFLDVACFF 401
             L ++   +      +  +T +  K    +++  I++ S + L+ AE +++F  ++ F 
Sbjct: 328 RRLSIIAESI-----RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382

Query: 402 KGEKRDYV-SKIL-----DSCGFEPVIGIGVLIEKSLLTICESD----RLWMHDLLLEMG 451
                  + + +L     D    + ++ +  L + SL+   E       + +  + LE+ 
Sbjct: 383 PSAH---IPTILLSLIWFDVIKSDVMVVVNKLHKYSLV---EKQPKESTISIPSIYLELK 436

Query: 452 RQIVRRQS 459
            ++    +
Sbjct: 437 VKLENEYA 444

>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 = 51.0 bits (121), Expect = 7e-07
 Identities = 65/443 (14%), Positives = 121/443 (27%), Gaps = 129/443 (29%)

Query: 18  FRDDKQLEKGGSISPNLLKAIEE--SRISIIVLSRNYASSTWCLDEL--VKIVEYKN--- 70
           ++ D         S N+   I    + +  ++ S+ Y +    L  +   K     N   
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC 266

Query: 71  ------REDQIFPIFYDVEPTVVRKQTTS--FGEAFTKHE--EFFRDNIE-KVQKWRH-A 118
                 R  Q+     D          +        T  E        ++ + Q      
Sbjct: 267 KILLTTRFKQVT----DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322

Query: 119 LKV---VANISGWELKDSKIRTE------SEILKELVGIESRLEKLKFLMGAGCNDVRMI 169
           L       +I    ++D     +       + L  +  IES L  L+             
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI--IESSLNVLE------------- 367

Query: 170 GIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK-------------EKYDKEGSVISL 216
                         R ++D +S       F                   K D    V  L
Sbjct: 368 ----------PAEYRKMFDRLS------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411

Query: 217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGP 276
            K   S + K    S  ++      I   L+ K   L  +   H   +      + +   
Sbjct: 412 HKY--SLVEKQPKESTISIPS----IYLELKVK---LENEYALHRSIVDHYNIPKTF--D 460

Query: 277 GSRIIITTRDE--------HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYV 328
              +I    D+        HL  +   E +     +  D  F    L+    QK R    
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF----LE----QKIRH--- 509

Query: 329 HLSQLVVNYAGGLPLALKVLGSFLFGRP--------VDEWTSTLERLKREPENEIL---- 376
                  N +G +   L  L    F +P         +   + +     + E  ++    
Sbjct: 510 --DSTAWNASGSI---LNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY 564

Query: 377 -DILQISF----DGL-KEAEKEI 393
            D+L+I+     + + +EA K++
Sbjct: 565 TDLLRIALMAEDEAIFEEAHKQV 587

>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 =  148 bits (376), Expect = 3e-39
 Identities = 64/382 (16%), Positives = 135/382 (35%), Gaps = 58/382 (15%)

Query: 106 RDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKE---LVGIESRLEKLKFLMGAG 162
              +        +     ++SG       +  E  + +     V  +  +  ++  +   
Sbjct: 84  AALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKL 143

Query: 163 CNDVRMIGIWGMGGLGKTTLARVVY---DLISHEFDGSSFLADVKEKYDKEGSVISLQKQ 219
             +   + I GM G GK+ LA        L+   F G      V ++      ++   + 
Sbjct: 144 KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSG--LLMKLQN 201

Query: 220 LISDLLKLADNSIRNVYDGINMIGRRLRQ------KKVLLVIDDVAHVEQLRRLAGKRDW 273
           L + L +    S R   + I     RLR        + LL++DDV     L         
Sbjct: 202 LCTRLDQDESFSQRLPLN-IEEAKDRLRILMLRKHPRSLLILDDVWDSWVL-------KA 253

Query: 274 FGPGSRIIITTRDEHLLKL--HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLS 331
           F    +I++TTRD+ +          V    +L  ++  ++  L        + +    +
Sbjct: 254 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM---KKADLPEQA 310

Query: 332 QLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKRE-----------PENEILDILQ 380
             ++    G PL + ++G+ L   P + W   L++L+ +               + + + 
Sbjct: 311 HSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMS 369

Query: 381 ISFDGLKEAEKEIFLDVACFFKGEK--RDYVS-------KILDSCGFEPVIGIGVLIEKS 431
           IS + L+E  K+ + D++   K  K     +        + ++    E        + KS
Sbjct: 370 ISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQE-------FVNKS 422

Query: 432 LLTICESDRLW---MHDLLLEM 450
           LL    + + +   +HDL ++ 
Sbjct: 423 LLFCDRNGKSFRYYLHDLQVDF 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 = 95.7 bits (238), Expect = 6e-21
 Identities = 66/332 (19%), Positives = 132/332 (39%), Gaps = 44/332 (13%)

Query: 143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVV---YDLISHEFDGSSF 199
           K +  I+ +L KL         +   + I+GM G GK+ LA      + L+   F G   
Sbjct: 131 KLVHAIQQKLWKLN-------GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVH 183

Query: 200 LADVKEKYDKEGSVISLQK--QLISDLLKLADNSIRNVYDGINMIGRRL--RQKKVLLVI 255
              + ++ DK G ++ LQ     +      +     N+ +  + +   +  +  + LL++
Sbjct: 184 WVSIGKQ-DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLIL 242

Query: 256 DDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLK--LHRVEEVFKLEALTYDEAFQLF 313
           DDV     L+        F    +I++TTRD+ +    +     V     L  ++  ++ 
Sbjct: 243 DDVWDPWVLKA-------FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL 295

Query: 314 CLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPEN 373
              +      +E+    +  ++    G PL + ++G+ L     + W   L +L+ +   
Sbjct: 296 ---SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFK 351

Query: 374 E-----------ILDILQISFDGLKEAEKEIFLDVACFFKGEK-RDYVSKILDSCGFEPV 421
                       + + + IS + L+E  K+ + D++   K  K    V  +L     E V
Sbjct: 352 RIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEV 411

Query: 422 IGI-GVLIEKSLLTI---CESDRLWMHDLLLE 449
             I    + KSLL      +S   ++HDL ++
Sbjct: 412 EDILQEFVNKSLLFCNRNGKSFCYYLHDLQVD 443

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A Length = 146

 Score = 60.1 bits (146), Expect = 3e-11
 Identities = 21/125 (16%), Positives = 45/125 (36%), Gaps = 10/125 (8%)

Query: 2   FISHLYTAL--NDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCL 59
               L + L  +   +  F   +    GG+I   L +A+  S   +++++  +    WC 
Sbjct: 24  AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQDPWCK 83

Query: 60  DELVKIV-EYKNREDQIFPIFYDVE----PTVVRKQTTSFGEAFTKHEEFFRDNIEKVQK 114
            ++++ + E    E    P+   +     P  +R             +  FR   E V +
Sbjct: 84  YQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYY---VDGRGPDGGFRQVKEAVMR 140

Query: 115 WRHAL 119
           +   L
Sbjct: 141 YLQTL 145

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A Length = 178

 Score = 43.8 bits (103), Expect = 3e-05
 Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 4/77 (5%)

Query: 11  NDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYK- 69
            D  I +   +   + G SIS N++  IE+S  SI VLS N+  + WC  E      +  
Sbjct: 61  EDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEF-YFAHHNL 119

Query: 70  --NREDQIFPIFYDVEP 84
                D I  I  +  P
Sbjct: 120 FHENSDHIILILLEPIP 136

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens} Length = 159

 Score = 41.2 bits (96), Expect = 1e-04
 Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 1/75 (1%)

Query: 11  NDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYA-SSTWCLDELVKIVEYK 69
              G  +F  D+ L   G+   ++ + +++S+  IIV++ NY     W + EL   +   
Sbjct: 38  KHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYVVRRGWSIFELETRLRNM 97

Query: 70  NREDQIFPIFYDVEP 84
               +I  I  +   
Sbjct: 98  LVTGEIKVILIECSE 112

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 27  GGSISPNLLKAIEESRISIIVLSRNYASSTWCLDEL 62
           G +   N+  AI  SR  + ++SR++    WCL+  
Sbjct: 715 GENRIANIQDAIWNSRKIVCLVSRHFLRDGWCLEAF 750

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	483
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
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.89
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.83
2fna_A	357	Conserved hypothetical protein; structural genomic	99.81
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.78
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.77
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.69
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.67
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.65
2js7_A	160	Myeloid differentiation primary response protein M	99.64
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.61
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.61
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.61
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.6
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.45
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.38
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.29
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.16
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.15
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.09
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.02
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.01
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.01
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.94
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.88
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.86
3bos_A	242	Putative DNA replication factor; P-loop containing	98.81
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.81
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.77
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.76
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.74
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.73
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.72
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.71
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.69
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.69
3pvs_A	447	Replication-associated recombination protein A; ma	98.66
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.65
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.64
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.59
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.58
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.57
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.55
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.55
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.52
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.52
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.5
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.5
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.5
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.46
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.46
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.39
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.39
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.38
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.37
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.36
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.34
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.34
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.34
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.31
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.27
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.24
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.23
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.17
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.16
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.16
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.16
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.08
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.03
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.02
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.02
3co5_A	143	Putative two-component system transcriptional RES	97.99
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.94
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.91
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.87
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.86
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.81
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.79
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.71
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.7
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.7
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.69
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.58
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.56
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.37
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.26
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.22
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.19
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.15
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.05
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.04
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.99
3io5_A	333	Recombination and repair protein; storage dimer, i	96.98
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.96
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.96
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.95
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.92
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.83
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.82
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.8
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.75
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.75
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.74
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.73
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.71
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.69
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.69
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.69
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.64
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.62
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.54
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.51
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.5
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.46
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.45
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.43
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.43
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.37
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.33
2qgz_A	308	Helicase loader, putative primosome component; str	96.33
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.32
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.32
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.31
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.3
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.28
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.25
3ice_A	422	Transcription termination factor RHO; transcriptio	96.25
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.23
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.21
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.21
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.21
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.2
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.2
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.18
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.15
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.15
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.14
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.14
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.13
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.1
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.03
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.02
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.02
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.01
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.99
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.98
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.98
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.98
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.97
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.96
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.95
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.94
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.92
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.91
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.91
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.9
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.89
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.88
1via_A	175	Shikimate kinase; structural genomics, transferase	95.87
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.86
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.85
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.85
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.85
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.84
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.81
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.8
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.8
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.78
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.77
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.77
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.76
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.76
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.76
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.75
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.75
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.75
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.74
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.74
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.72
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.72
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.71
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.7
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.69
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.68
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.67
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.66
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.65
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.64
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.63
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.61
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.6
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.6
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.59
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.59
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.57
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.57
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.55
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.54
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.51
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.5
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.5
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.5
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	95.49
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.46
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.46
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.44
2xxa_A	433	Signal recognition particle protein; protein trans	95.43
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.43
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.4
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.38
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.36
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.35
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.35
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.35
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.34
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.33
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.33
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.32
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.28
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.28
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.26
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.26
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.25
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.25
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.24
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.24
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.21
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.21
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.19
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.16
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.12
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.09
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.05
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.04
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.03
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.03
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.02
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.99
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.98
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.98
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.95
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.94
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.94
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.94
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.93
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.91
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.91
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.89
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.89
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.88
2og2_A	359	Putative signal recognition particle receptor; nuc	94.87
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.87
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.87
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.87
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.86
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.86
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.85
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.84
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.84
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.82
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.8
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	94.7
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.63
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.59
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.57
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.56
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.51
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.48
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.47
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.46
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.43
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	94.37
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.36
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.3
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.3
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.26
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.21
3end_A	307	Light-independent protochlorophyllide reductase ir	94.21
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.2
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.18
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.18
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.15
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.14
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.07
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.05
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.93
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	93.92
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.9
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.89
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.89
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.86
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.86
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.81
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	93.77
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.76
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	93.76
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.76
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.74
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.71
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.69
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.68
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.67
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.65
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.64
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.6
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.59
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.59
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.53
1g6h_A	257	High-affinity branched-chain amino acid transport	93.52
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.5
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.5
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.49
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.48
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.48
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.43
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.41
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.41
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.39
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.38
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.38
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.36
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.35
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.35
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.34
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.34
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.28
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.28
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.27
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.22
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.2
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.16
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.11
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.11
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.11
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	93.09
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.07
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	93.06
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.06
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.06
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.04
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.03
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.02
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.98
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.98
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.96
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	92.96
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.89
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.87
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	92.83
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	92.83
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	92.75
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	92.73
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	92.73
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.7
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.68
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.68
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.63
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	92.62
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.61
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.61
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	92.6
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	92.57
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.56
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.5
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	92.47
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.46
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	92.46
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	92.44
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.43
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.43
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.41
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.4
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.4
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.39
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.37
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	92.32
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.32
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	92.28
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.27
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.25
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.23
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	92.23
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.21
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.21
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.2
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.17
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.14
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.12
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.12
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.1
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.08
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.07
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.05
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	92.05
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.02
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.02
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.02
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.01
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.0
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	91.98
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.96
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.95
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	91.94
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.89
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.88
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	91.88
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	91.85
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	91.85
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	91.84
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	91.84
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	91.84
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.81
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	91.81
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	91.8
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	91.8
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.78
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	91.77
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.76
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.76
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.74
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	91.71
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	91.71
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.7
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	91.69
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	91.64
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.63
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.57
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.55
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.55
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.54
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.54
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	91.54
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	91.51
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.5
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	91.49
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.48
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.41
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	91.36
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.33
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	91.32
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.28
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.27
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.27
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	91.25
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.25
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.25
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.22
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.22
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.15
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.11
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	91.11
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.07
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.06
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.06
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.06
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	91.04
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.04
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.04
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.02
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	90.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	90.95
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	90.94
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	90.93
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.91
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	90.91
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.91
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	90.9
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.88
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	90.83
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	90.82
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	90.81
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.79
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	90.79
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	90.77
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	90.77
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	90.72
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	90.68
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	90.65
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	90.62
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	90.61
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.59
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	90.57
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	90.55
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	90.5
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.48
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	90.45

>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=7.2e-42  Score=354.56  Aligned_cols=301  Identities=17%  Similarity=0.135  Sum_probs=225.7

Q ss_pred             hchhHHHHHHHHHhhcC-CCCcEEEEEeCCCCCChhHHHHHHHH----HhhcccceeEEEEecccccccCCcHHHHHHHH
Q 038919          146 VGIESRLEKLKFLMGAG-CNDVRMIGIWGMGGLGKTTLARVVYD----LISHEFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       146 vGR~~~l~~l~~~L~~~-~~~~~~v~I~G~~GiGKTtLa~~~~~----~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      +||+.++++|.++|... ....++|+|+||||+||||||+++|+    ++..+|+..+|+ ++++... .+. ..++..+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv-~vs~~~~-~~~-~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWL-KDSGTAP-KST-FDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEE-ECCCCST-THH-HHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEE-EECCCCC-CCH-HHHHHHH
Confidence            59999999999999754 34579999999999999999999996    688899888877 4554332 223 7888888


Q ss_pred             HHHHhcccC-CC-----ccchhhhHHHHHHHHhcC-ceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhC
Q 038919          221 ISDLLKLAD-NS-----IRNVYDGINMIGRRLRQK-KVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLH  293 (483)
Q Consensus       221 l~~~~~~~~-~~-----~~~~~~~~~~l~~~l~~~-~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~  293 (483)
                      +..+..... ..     ..+.......+++.++++ ++||||||||+.+++ .+..     .+||+||||||++.++..+
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            888765421 11     123344578899999996 999999999998876 3332     3799999999999988776


Q ss_pred             C-CcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHH-hccCC
Q 038919          294 R-VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLER-LKREP  371 (483)
Q Consensus       294 ~-~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~-l~~~~  371 (483)
                      . ...+|+|++|+.++|++||.++++.... .+...+++.+|+++|+|+||||+.+|+.++.+. .+|...+.. +....
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            5 3467999999999999999999876543 357778999999999999999999999997764 233333322 22112


Q ss_pred             CccHHHHHHHhhcCCcHHHHHHHh-----------hhhcCCCCCCHHHHHHHHHhC--CCC-----------hhhhHHHH
Q 038919          372 ENEILDILQISFDGLKEAEKEIFL-----------DVACFFKGEKRDYVSKILDSC--GFE-----------PVIGIGVL  427 (483)
Q Consensus       372 ~~~v~~~l~~s~~~L~~~~k~~l~-----------~la~f~~~~~~~~l~~~~~~~--~~~-----------~~~~l~~L  427 (483)
                      ...+..++..||+.|++..+.||+           +||+||.+++.+  ..+|.+.  |+.           ....+++|
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            344555566666666666666666           999999987766  5677765  333           22369999


Q ss_pred             hhCCceeEec---CCeEEccHHHHHHHHHHHhhhC
Q 038919          428 IEKSLLTICE---SDRLWMHDLLLEMGRQIVRRQS  459 (483)
Q Consensus       428 ~~~sLi~~~~---~~~~~mH~lvr~~~~~~~~~~~  459 (483)
                      +++||++...   .++|.|||+||+||++++.+++
T Consensus       438 ~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          438 SKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            9999998764   3469999999999997765543

>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=2.4e-38  Score=360.01  Aligned_cols=303  Identities=19%  Similarity=0.271  Sum_probs=243.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH---hhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL---ISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +.||||+.++++|.++|...+++.++|+|+||||+||||||++++++   ...+|+..+||.+++..... .. ...+..
T Consensus       124 ~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-~~-~~~~~~  201 (1249)
T 3sfz_A          124 VIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKS-GL-LMKLQN  201 (1249)
T ss_dssp             SSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHH-HH-HHHHHH
T ss_pred             ceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCch-HH-HHHHHH
Confidence            56999999999999999766667899999999999999999999987   45668888888777653221 11 333444


Q ss_pred             HHHHHhcccC---CCccchhhhHHHHHHHHhcC--ceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh-C
Q 038919          220 LISDLLKLAD---NSIRNVYDGINMIGRRLRQK--KVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKL-H  293 (483)
Q Consensus       220 ll~~~~~~~~---~~~~~~~~~~~~l~~~l~~~--~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~-~  293 (483)
                      ++..+.....   ....+.......++..+.++  ++||||||||+.++++.+       ++|++||||||++.++.. .
T Consensus       202 ~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~  274 (1249)
T 3sfz_A          202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVM  274 (1249)
T ss_dssp             HHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCC
T ss_pred             HHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhc
Confidence            5555433221   22345566777777778776  999999999999877654       679999999999988743 4


Q ss_pred             CCcceEecCC-CChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhccCCC
Q 038919          294 RVEEVFKLEA-LTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPE  372 (483)
Q Consensus       294 ~~~~~~~l~~-L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~~~~  372 (483)
                      .....+.+++ |+.+||++||...++...   +...+.+++|+++|+|+||||+++|++|+.++ ..|...+..+.....
T Consensus       275 ~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~  350 (1249)
T 3sfz_A          275 GPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQF  350 (1249)
T ss_dssp             SCBCCEECCSSCCHHHHHHHHHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCC
T ss_pred             CCceEEEecCCCCHHHHHHHHHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhh
Confidence            4557889996 999999999998884432   23346689999999999999999999998765 578888888755321


Q ss_pred             -----------ccHHHHHHHhhcCCcHHHHHHHhhhhcCCCC--CCHHHHHHHHHhCCCChhhhHHHHhhCCceeEecCC
Q 038919          373 -----------NEILDILQISFDGLKEAEKEIFLDVACFFKG--EKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESD  439 (483)
Q Consensus       373 -----------~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~  439 (483)
                                 ..+..+|..||+.|++++|.||+++|+||.+  ++.+.+..+|..++......+++|+++|||+...++
T Consensus       351 ~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~  430 (1249)
T 3sfz_A          351 KRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNG  430 (1249)
T ss_dssp             CCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESS
T ss_pred             hhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCC
Confidence                       3589999999999999999999999999986  588899999987777788899999999999987666


Q ss_pred             e---EEccHHHHHHHHHHHhhh
Q 038919          440 R---LWMHDLLLEMGRQIVRRQ  458 (483)
Q Consensus       440 ~---~~mH~lvr~~~~~~~~~~  458 (483)
                      .   |+||+++|+|+++++.++
T Consensus       431 ~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          431 KSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             SSEEEECCHHHHHHHHHHTGGG
T ss_pred             CceEEEecHHHHHHHHhhhhHH
Confidence            4   999999999999986654

>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=6.5e-38  Score=329.18  Aligned_cols=326  Identities=18%  Similarity=0.241  Sum_probs=243.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh---hcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI---SHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~---~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +.||||+.+++.|.++|...+++.++|+|+||||+||||||.+++++.   ..+|+..++|.++.... .... ...+..
T Consensus       124 ~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~-~~~~-~~~l~~  201 (591)
T 1z6t_A          124 VVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQD-KSGL-LMKLQN  201 (591)
T ss_dssp             SSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCC-HHHH-HHHHHH
T ss_pred             CeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCc-hHHH-HHHHHH
Confidence            579999999999999998655568999999999999999999999764   67787666766565431 1111 122222


Q ss_pred             HHHHHhccc---CCCccchhhhHHHHHHHHhc--CceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHhhCC
Q 038919          220 LISDLLKLA---DNSIRNVYDGINMIGRRLRQ--KKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHR  294 (483)
Q Consensus       220 ll~~~~~~~---~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~  294 (483)
                      +...+....   .....+.......+...+.+  +++||||||+|+...++.+       +++++||||||++.+.....
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~  274 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM  274 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC
Confidence            232322111   12234556667777777776  7899999999998877643       57899999999998766543


Q ss_pred             CcceEec---CCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhccCC
Q 038919          295 VEEVFKL---EALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREP  371 (483)
Q Consensus       295 ~~~~~~l---~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~~~  371 (483)
                       ...+++   ++|+.+|+++||...++..   .....+.+.+|++.|+|+||||+++|+.++... ..|...+..+....
T Consensus       275 -~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~  349 (591)
T 1z6t_A          275 -GPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQ  349 (591)
T ss_dssp             -SCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCC
T ss_pred             -CCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhH
Confidence             344555   5899999999999988642   222235688999999999999999999997654 46888888776432


Q ss_pred             -----------CccHHHHHHHhhcCCcHHHHHHHhhhhcCCCC--CCHHHHHHHHHhCCCChhhhHHHHhhCCceeEecC
Q 038919          372 -----------ENEILDILQISFDGLKEAEKEIFLDVACFFKG--EKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICES  438 (483)
Q Consensus       372 -----------~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~  438 (483)
                                 ..++..++..||+.|+++.|.||+++|+||.+  ++.+.+..+|..+.......++.|+++|||+...+
T Consensus       350 ~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~~  429 (591)
T 1z6t_A          350 FKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRN  429 (591)
T ss_dssp             CCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEE
T ss_pred             HHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEecC
Confidence                       24789999999999999999999999999875  67788888887665567788999999999986543


Q ss_pred             C---eEEccHHHHHHHHHHHhh------------h-------CCCCCCCccccccCchHHHHhccC
Q 038919          439 D---RLWMHDLLLEMGRQIVRR------------Q-------SPREPGKRSRLWEEADLCHVLSQN  482 (483)
Q Consensus       439 ~---~~~mH~lvr~~~~~~~~~------------~-------~~~~~~~r~rl~~~~~~~~~l~~~  482 (483)
                      +   +|+||+++|+++++....            -       -...+..+.++|+++.+++++.-+
T Consensus       430 ~~~~~~~~H~lv~~~~~~~~~~~~~~~h~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~a~  495 (591)
T 1z6t_A          430 GKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAK  495 (591)
T ss_dssp             TTEEEEECCHHHHHHHHHHTGGGHHHHHHHHHHHHTTTCCGGGCCTTSTTHHHHHHHHHHHHHHTT
T ss_pred             CCccEEEEcHHHHHHHHhhhhhHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEeehhhHHHHHHhcC
Confidence            2   699999999999987221            0       022334566778877888776543

>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=7.2e-38  Score=330.09  Aligned_cols=303  Identities=17%  Similarity=0.155  Sum_probs=228.1

Q ss_pred             hchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHH--HhhcccceeEEEEecccccccCCcHHHHHHHHHHH
Q 038919          146 VGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYD--LISHEFDGSSFLADVKEKYDKEGSVISLQKQLISD  223 (483)
Q Consensus       146 vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~--~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~  223 (483)
                      |||+.++++|.++|... ++.++|+|+||||+||||||+++++  +++.+|+..++|.++++..+   . ..+...+...
T Consensus       131 VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d---~-~~IL~~Ll~l  205 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS---P-ETVLEMLQKL  205 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSS---H-HHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCC---H-HHHHHHHHHH
Confidence            99999999999998753 2478999999999999999999996  47888998777777765433   2 4444444443


Q ss_pred             Hhccc---CC-------CccchhhhHHHHHHHH---hcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          224 LLKLA---DN-------SIRNVYDGINMIGRRL---RQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       224 ~~~~~---~~-------~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      +....   ..       ...+.+.....+++.+   .++++||||||||+.++++.+       ++||+||||||++.++
T Consensus       206 L~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f-------~pGSRILVTTRd~~Va  278 (1221)
T 1vt4_I          206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF-------NLSCKILLTTRFKQVT  278 (1221)
T ss_dssp             HHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHH-------HSSCCEEEECSCSHHH
T ss_pred             HhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhh-------CCCeEEEEeccChHHH
Confidence            22111   00       0112334455666655   579999999999999999886       3689999999999887


Q ss_pred             hhCCCcceEecC------CCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC--CHHHHHH
Q 038919          291 KLHRVEEVFKLE------ALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR--PVDEWTS  362 (483)
Q Consensus       291 ~~~~~~~~~~l~------~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~--~~~~~~~  362 (483)
                      ..+.....+.|+      +|+.+||++||+..... . .    .++..+   .|+|+||||+++|+.|+++  +...|..
T Consensus       279 ~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~-~-~----eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~  349 (1221)
T 1vt4_I          279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC-R-P----QDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKH  349 (1221)
T ss_dssp             HHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCC-C-T----TTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHH
T ss_pred             HhcCCCeEEEecCccccCCcCHHHHHHHHHHHcCC-C-H----HHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhc
Confidence            543333356666      99999999999988532 2 1    123333   3999999999999999875  6777865


Q ss_pred             HHHHhccCCCccHHHHHHHhhcCCcHHH-HHHHhhhhcCCCC--CCHHHHHHHHHhCCC-ChhhhHHHHhhCCceeEec-
Q 038919          363 TLERLKREPENEILDILQISFDGLKEAE-KEIFLDVACFFKG--EKRDYVSKILDSCGF-EPVIGIGVLIEKSLLTICE-  437 (483)
Q Consensus       363 ~l~~l~~~~~~~v~~~l~~s~~~L~~~~-k~~l~~la~f~~~--~~~~~l~~~~~~~~~-~~~~~l~~L~~~sLi~~~~-  437 (483)
                      .       ....+..+|+.||+.|++++ |.||+++|+||.+  ++.+.+..+|..++. +....+++|+++|||+..+ 
T Consensus       350 ~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~  422 (1221)
T 1vt4_I          350 V-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK  422 (1221)
T ss_dssp             C-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSS
T ss_pred             C-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCC
Confidence            3       35679999999999999999 9999999999986  567788999987642 4677899999999999863 


Q ss_pred             CCeEEccHHHHHHHHHHHhhhCCCCCCCccccccCchHHHHhcc
Q 038919          438 SDRLWMHDLLLEMGRQIVRRQSPREPGKRSRLWEEADLCHVLSQ  481 (483)
Q Consensus       438 ~~~~~mH~lvr~~~~~~~~~~~~~~~~~r~rl~~~~~~~~~l~~  481 (483)
                      .++|+||+|+++++     +.....+..++|+.++.++++++.+
T Consensus       423 ~~rYrMHDLllELr-----~~~~e~~alHrRLvd~Y~~~~vf~~  461 (1221)
T 1vt4_I          423 ESTISIPSIYLELK-----VKLENEYALHRSIVDHYNIPKTFDS  461 (1221)
T ss_dssp             SSEEBCCCHHHHHH-----HHHSCCTTHHHHHHHHHHHHHHCCC
T ss_pred             CCEEEehHHHHHHh-----cCCCcHHHHHHHHHHHHHhhCcCCC
Confidence            56899999998733     2222456778888888777766543

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=3e-38  Score=270.07  Aligned_cols=140  Identities=44%  Similarity=0.756  Sum_probs=115.8

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCc-eEeee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQ-IFPIF   79 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~-v~Pvf   79 (483)
                      +|++||+++|+++||++|+|++++++|+.|.++|.+||++|+++|+|||+||++|+||++||++|++|.+.+++ |+|||
T Consensus        23 ~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S~WCl~EL~~i~~~~~~~~~~ViPIf  102 (176)
T 3jrn_A           23 NFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIF  102 (176)
T ss_dssp             THHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTCHHHHHHHHHHHHHHHTTSCEEEEEE
T ss_pred             HHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCChhHHHHHHHHHhhhccCCCEEEEEE
Confidence            59999999999999999999999999999999999999999999999999999999999999999999988889 99999


Q ss_pred             ecccCccccccchhhhhhhhhhHHHhhhhHHHHHHHHHHHHHHhhhcCCcccCCCCCchHHHHHhhh
Q 038919           80 YDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKELV  146 (483)
Q Consensus        80 ~~v~p~~vr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~~~~~g~~~~~~~~~~~~~~i~~~v  146 (483)
                      |+|+|++||+|+|+|+++|.+|+.+  ...+++++|+.||+.+++++|+..    ..+|+++|..+|
T Consensus       103 y~V~ps~Vr~q~g~fg~af~~~~~~--~~~~~~~~Wr~AL~~va~~~G~~~----~~~e~~~i~~Iv  163 (176)
T 3jrn_A          103 YGVEPNHVRWQTGVLAEQFKKHASR--EDPEKVLKWRQALTNFAQLSGDCS----GDDDSKLVDKIA  163 (176)
T ss_dssp             CSSCHHHHHHTCTHHHHHHHHHHTT--SCHHHHHHHHHHHHHHTTSCCEEC----CSCHHHHHHHHH
T ss_pred             ecCCHHHhhhccCcHHHHHHHHHhc--cCHHHHHHHHHHHHHHhcccceec----CCCHHHHHHHHH
Confidence            9999999999999999999999887  556889999999999999999943    245777665544

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=100.00  E-value=6.7e-37  Score=265.53  Aligned_cols=141  Identities=40%  Similarity=0.748  Sum_probs=126.5

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhc-CCc-eEee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNR-EDQ-IFPI   78 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~-~~~-v~Pv   78 (483)
                      +|++||+++|+++||++|+|++++++|+.|.++|.+||++|+++|+|||+||++|.||++||++|++|.+. +++ ||||
T Consensus        50 ~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nYa~S~WCl~EL~~I~e~~~~~~~~~ViPI  129 (204)
T 3ozi_A           50 QFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPI  129 (204)
T ss_dssp             THHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTGGGCHHHHHHHHHHHHHHHHCTTSEECCE
T ss_pred             HHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEcccccCcHHHHHHHHHHHHHHhcCCeeeEEE
Confidence            59999999999999999999989999999999999999999999999999999999999999999999875 577 9999


Q ss_pred             eecccCccccccchhhhhhhhhhHHHhhhhHHHHHHHHHHHHHHhhhcCCcccCCCCCchHHHHHhh
Q 038919           79 FYDVEPTVVRKQTTSFGEAFTKHEEFFRDNIEKVQKWRHALKVVANISGWELKDSKIRTESEILKEL  145 (483)
Q Consensus        79 f~~v~p~~vr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~~~~~g~~~~~~~~~~~~~~i~~~  145 (483)
                      ||+|+|++||+|+|+|+++|.+|+.++.  .+++++|+.||+.+++++||....  ...+.+++..+
T Consensus       130 FY~VdPs~Vr~q~g~fg~af~~~~~~~~--~~~v~~Wr~AL~~va~lsG~~~~~--~~~e~~~i~~I  192 (204)
T 3ozi_A          130 FYMVDPSDVRHQTGCYKKAFRKHANKFD--GQTIQNWKDALKKVGDLKGWHIGK--NDKQGAIADKV  192 (204)
T ss_dssp             EESSCHHHHHHTCTTHHHHHHHHTTTSC--HHHHHHHHHHHHHHHTSCBEEECT--TSCHHHHHHHH
T ss_pred             EeecCHHHHHhccccHHHHHHHHHHhhC--HHHHHHHHHHHHHHhccCceecCC--CCCHHHHHHHH
Confidence            9999999999999999999999988764  367999999999999999994322  23355555443

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.89  E-value=1.8e-24  Score=184.69  Aligned_cols=101  Identities=25%  Similarity=0.420  Sum_probs=96.2

Q ss_pred             CchhhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCc-eEeee
Q 038919            1 TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQ-IFPIF   79 (483)
Q Consensus         1 ~f~~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~-v~Pvf   79 (483)
                      +|+.||+.+|+++||+||+|++++.+|+.|.++|.+||++|+++|+|+|++|+.|.||+.||..+++|...+++ |+|||
T Consensus        34 ~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~~iiPV~  113 (154)
T 3h16_A           34 DFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIW  113 (154)
T ss_dssp             TTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCCHHHHHHHTCCCTTSCCCEEEEE
T ss_pred             HHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHHHHHHHHHHHHHhcCCCEEEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999998877777 99999


Q ss_pred             ecccCccccccchhhhhhhhhh
Q 038919           80 YDVEPTVVRKQTTSFGEAFTKH  101 (483)
Q Consensus        80 ~~v~p~~vr~~~~~~~~~~~~~  101 (483)
                      |+++|++||+|.|.|++.|...
T Consensus       114 ~~v~p~~v~~~~~~~~~~~~~~  135 (154)
T 3h16_A          114 HKVSKDEVASFSPTMADKLAFN  135 (154)
T ss_dssp             ESCCTGGGTTTCCCCCSSCCEE
T ss_pred             ecCCHHHHhhCCccHHHHHhhh
Confidence            9999999999999999887754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.83  E-value=1.3e-18  Score=170.01  Aligned_cols=287  Identities=15%  Similarity=0.120  Sum_probs=175.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc--cCCcHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD--KEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~l~~~l  220 (483)
                      ..|+||+.+++.|.+++..+    +++.|+|++|+|||||+++++++..     .+| .++.....  .......+...+
T Consensus        12 ~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~~~~~~l   81 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GIL-IDCRELYAERGHITREELIKEL   81 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEE-EEHHHHHHTTTCBCHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEE-EEeecccccccCCCHHHHHHHH
Confidence            57999999999999998753    6899999999999999999998751     333 33432210  001113333333


Q ss_pred             HHHHhc---------------ccCC--CccchhhhHHHHHHHHhc-CceEEEEcCCCCH---------HHHHHHhcCCCC
Q 038919          221 ISDLLK---------------LADN--SIRNVYDGINMIGRRLRQ-KKVLLVIDDVAHV---------EQLRRLAGKRDW  273 (483)
Q Consensus       221 l~~~~~---------------~~~~--~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~---------~~~~~l~~~~~~  273 (483)
                      ...+..               ....  ...+.......+.+.... ++++|||||++..         +.+..+......
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~  161 (350)
T 2qen_A           82 QSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDS  161 (350)
T ss_dssp             HHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHh
Confidence            332211               0000  012334445555554443 4999999999652         222222211111


Q ss_pred             CCCCcEEEEEcCCHhHHhh-----------C-CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          274 FGPGSRIIITTRDEHLLKL-----------H-RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       274 ~~~~~~iliTtR~~~~~~~-----------~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                       .++.++|+|++.......           . .....+.+.||+.+|+.+++..........  ...+.+..+++.|+|+
T Consensus       162 -~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~--~~~~~~~~i~~~tgG~  238 (350)
T 2qen_A          162 -LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD--VPENEIEEAVELLDGI  238 (350)
T ss_dssp             -CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHHTTC
T ss_pred             -cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCC
Confidence             257889999887643221           1 112478999999999999998754322111  1235678899999999


Q ss_pred             hHHHHHHHHHhCC-CCHHHHHHHHHHhccCCCccHHHHHHHhhcCC---cHHHHHHHhhhhcCCCCCCHHHHHHHHHhC-
Q 038919          342 PLALKVLGSFLFG-RPVDEWTSTLERLKREPENEILDILQISFDGL---KEAEKEIFLDVACFFKGEKRDYVSKILDSC-  416 (483)
Q Consensus       342 PLal~~la~~l~~-~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L---~~~~k~~l~~la~f~~~~~~~~l~~~~~~~-  416 (483)
                      |+++..++..+.. .+...+   ...+.    ..+...+...+..+   ++..+.++..+|+  ...+...+...+... 
T Consensus       239 P~~l~~~~~~~~~~~~~~~~---~~~~~----~~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~  309 (350)
T 2qen_A          239 PGWLVVFGVEYLRNGDFGRA---MKRTL----EVAKGLIMGELEELRRRSPRYVDILRAIAL--GYNRWSLIRDYLAVKG  309 (350)
T ss_dssp             HHHHHHHHHHHHHHCCHHHH---HHHHH----HHHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccccHhHH---HHHHH----HHHHHHHHHHHHHHHhCChhHHHHHHHHHh--CCCCHHHHHHHHHHHh
Confidence            9999999876432 222222   11111    11122222333334   7889999999998  345666776655321 


Q ss_pred             -CC---ChhhhHHHHhhCCceeEecCCeEEc-cHHHHHHHH
Q 038919          417 -GF---EPVIGIGVLIEKSLLTICESDRLWM-HDLLLEMGR  452 (483)
Q Consensus       417 -~~---~~~~~l~~L~~~sLi~~~~~~~~~m-H~lvr~~~~  452 (483)
                       +.   .....++.|.+.+||... ++.|.+ |++++++.+
T Consensus       310 ~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          310 TKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             CCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence             22   235679999999999887 567765 899998754

>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=99.81  E-value=7.1e-19  Score=172.30  Aligned_cols=283  Identities=17%  Similarity=0.172  Sum_probs=167.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc-ccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY-DKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~l~~~ll  221 (483)
                      ..|+||+.+++.|.+ +..     +++.|+|++|+|||+|+.+++++....   .+|+ ++.... ............+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLP---YIYL-DLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEE-EGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEE-EchhhccccCCCHHHHHHHHH
Confidence            579999999999999 763     599999999999999999999876532   3343 343220 00001122222222


Q ss_pred             HHH-------------hccc------CC---------CccchhhhHHHHHHHHhcCceEEEEcCCCCHH---------HH
Q 038919          222 SDL-------------LKLA------DN---------SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE---------QL  264 (483)
Q Consensus       222 ~~~-------------~~~~------~~---------~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---------~~  264 (483)
                      ..+             +...      ..         ...........+.+... ++++|||||++...         .+
T Consensus        83 ~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           83 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHH
Confidence            211             1100      00         01122222333322211 49999999996532         23


Q ss_pred             HHHhcCCCCCCCCcEEEEEcCCHhHHhh-----------CCC-cceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHH
Q 038919          265 RRLAGKRDWFGPGSRIIITTRDEHLLKL-----------HRV-EEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQ  332 (483)
Q Consensus       265 ~~l~~~~~~~~~~~~iliTtR~~~~~~~-----------~~~-~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~  332 (483)
                      ..+...    .++.++|+|++.......           .+. ...+.+.+|+.+|+.+++...+.......+.    ..
T Consensus       162 ~~~~~~----~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~  233 (357)
T 2fna_A          162 AYAYDN----LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YE  233 (357)
T ss_dssp             HHHHHH----CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HH
T ss_pred             HHHHHc----CCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HH
Confidence            333222    247889999997653221           111 2578999999999999998764321111111    27


Q ss_pred             HHHHHhCCChHHHHHHHHHhCC-CCHHHHHHHHHHhccCCCccHHHHHHHhh---cCCcHHHHHHHhhhhcCCCCCCHHH
Q 038919          333 LVVNYAGGLPLALKVLGSFLFG-RPVDEWTSTLERLKREPENEILDILQISF---DGLKEAEKEIFLDVACFFKGEKRDY  408 (483)
Q Consensus       333 ~i~~~~~G~PLal~~la~~l~~-~~~~~~~~~l~~l~~~~~~~v~~~l~~s~---~~L~~~~k~~l~~la~f~~~~~~~~  408 (483)
                      .+++.|+|+|+++..++..+.. .+...|..   .+.......+..-+...+   ..|++..+.++..+|+ . . +...
T Consensus       234 ~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~-g-~-~~~~  307 (357)
T 2fna_A          234 VVYEKIGGIPGWLTYFGFIYLDNKNLDFAIN---QTLEYAKKLILKEFENFLHGREIARKRYLNIMRTLSK-C-G-KWSD  307 (357)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT-C-B-CHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHccccchHHHHH---HHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc-C-C-CHHH
Confidence            8999999999999999877642 23333321   111000001111122111   1688999999999998 3 3 6666


Q ss_pred             HHHHHH-hCC-----CChhhhHHHHhhCCceeEecCCeEE-ccHHHHHHH
Q 038919          409 VSKILD-SCG-----FEPVIGIGVLIEKSLLTICESDRLW-MHDLLLEMG  451 (483)
Q Consensus       409 l~~~~~-~~~-----~~~~~~l~~L~~~sLi~~~~~~~~~-mH~lvr~~~  451 (483)
                      +...+. ..+     ......++.|.+.+||... ++.|. .|++++++.
T Consensus       308 l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~-~~~y~f~~~~~~~~l  356 (357)
T 2fna_A          308 VKRALELEEGIEISDSEIYNYLTQLTKHSWIIKE-GEKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEES-SSCEEESSHHHHHHT
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEec-CCEEEecCHHHHHhh
Confidence            665432 112     2345679999999999887 46676 489999874

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=99.78  E-value=3.7e-20  Score=155.37  Aligned_cols=115  Identities=16%  Similarity=0.296  Sum_probs=79.1

Q ss_pred             chhhHHHHHHh--CCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCCc-eEee
Q 038919            2 FISHLYTALND--KGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNREDQ-IFPI   78 (483)
Q Consensus         2 f~~~L~~~L~~--~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~~-v~Pv   78 (483)
                      |+.||+.+|++  .|+++|+|++++.+|+.+.++|.+||++|+++|+|+|++|++|.||+.|+..++.+...+.. ||||
T Consensus        24 ~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S~wc~~El~~al~~~~~~~~~vIpv  103 (146)
T 3ub2_A           24 AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPL  103 (146)
T ss_dssp             HHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHCHHHHHHHHHHHHTSSSSSSEEEEE
T ss_pred             HHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccCHHHHHHHHHHHHHHhhcCCcEEEE
Confidence            78899999999  59999999999999999999999999999999999999999999999999999998744344 8899


Q ss_pred             eecccCccc----cccchhhhhhhhhhHHHhhhhHHHHHHHHHHH
Q 038919           79 FYDVEPTVV----RKQTTSFGEAFTKHEEFFRDNIEKVQKWRHAL  119 (483)
Q Consensus        79 f~~v~p~~v----r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al  119 (483)
                      ||+++++++    |.....   .+......+.+..+.+.+|++++
T Consensus       104 ~~~v~~~~lp~~Lr~~~~i---d~~~~d~~f~~l~~~v~~~~~~~  145 (146)
T 3ub2_A          104 LSGLSRAAYPPELRFMYYV---DGRGPDGGFRQVKEAVMRYLQTL  145 (146)
T ss_dssp             ECSCCGGGSCGGGGGSCCE---ETTSGGGGHHHHHHHHHHHHTTC
T ss_pred             EcCCChhhCCHHHhCeeee---eccChHhhHHHHHHHHHHHHHhc
Confidence            999986554    433221   11234566666777788888764

>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=99.77  E-value=1.4e-17  Score=166.49  Aligned_cols=295  Identities=15%  Similarity=0.085  Sum_probs=172.3

Q ss_pred             HhhhchhHHHHHHHHHh-hc--CC--CCcEEEEE--eCCCCCChhHHHHHHHHHhhcc-----cceeEEEEecccccccC
Q 038919          143 KELVGIESRLEKLKFLM-GA--GC--NDVRMIGI--WGMGGLGKTTLARVVYDLISHE-----FDGSSFLADVKEKYDKE  210 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L-~~--~~--~~~~~v~I--~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~  210 (483)
                      ..|+||+.+++.+.+++ ..  ..  ...+.+.|  +|++|+|||+|++++++.....     +...+.+.++...   .
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~   98 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA---P   98 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC---C
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCC---C
Confidence            57999999999999988 42  11  23467777  9999999999999999887653     2333334333221   2


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCH--------HHHHHHhcCCCCC---C--
Q 038919          211 GSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV--------EQLRRLAGKRDWF---G--  275 (483)
Q Consensus       211 ~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~--------~~~~~l~~~~~~~---~--  275 (483)
                       ....+...++..+.........+.......+...+.  +++++|||||++..        +.+..+...+...   +  
T Consensus        99 -~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~  177 (412)
T 1w5s_A           99 -NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  177 (412)
T ss_dssp             -SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             -CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCC
Confidence             225667777766533211112233444555555554  67999999999653        4444433322111   2  


Q ss_pred             CCcEEEEEcCCHhHHhh---------CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhC------C
Q 038919          276 PGSRIIITTRDEHLLKL---------HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG------G  340 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~~---------~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~------G  340 (483)
                      ....+|+||+...+...         ......+.+++|+.+++.++|...+...........+....+++.++      |
T Consensus       178 ~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G  257 (412)
T 1w5s_A          178 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDG  257 (412)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCC
T ss_pred             ceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCC
Confidence            34557778875442211         11223389999999999999976542111111122467888999999      9


Q ss_pred             ChHHHHHHHHHh------CCC---CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC----CCCCHH
Q 038919          341 LPLALKVLGSFL------FGR---PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF----KGEKRD  407 (483)
Q Consensus       341 ~PLal~~la~~l------~~~---~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~----~~~~~~  407 (483)
                      +|..+..+....      .+.   +...+...+.....      ...+..++..||+..+.++..+|.+.    ..++..
T Consensus       258 ~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~  331 (412)
T 1w5s_A          258 SARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------ASIQTHELEALSIHELIILRLIAEATLGGMEWINAG  331 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHH
Confidence            997666554332      111   22333333322210      23345567899999999999998753    234554


Q ss_pred             HHHH----HH-HhCCCC------hhhhHHHHhhCCceeEec-----CCeEEccHHH
Q 038919          408 YVSK----IL-DSCGFE------PVIGIGVLIEKSLLTICE-----SDRLWMHDLL  447 (483)
Q Consensus       408 ~l~~----~~-~~~~~~------~~~~l~~L~~~sLi~~~~-----~~~~~mH~lv  447 (483)
                      .+..    +. ...+..      ....++.|.+.|||....     .|+|.+|.|.
T Consensus       332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~~g~~~~~~l~  387 (412)
T 1w5s_A          332 LLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSGRGMRGRTTLFRLA  387 (412)
T ss_dssp             HHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEECC-------CCEEEEC
T ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEeecccCCCCCceeEEEeC
Confidence            4332    22 222321      345789999999998653     3345455443

>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=99.69  E-value=5.5e-15  Score=146.22  Aligned_cols=280  Identities=12%  Similarity=0.042  Sum_probs=173.0

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc------c-ceeEEEEecccccccCCcH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE------F-DGSSFLADVKEKYDKEGSV  213 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f-~~~~~~~~~~~~~~~~~~~  213 (483)
                      ..|+||+.+++.+..++..  .....+.+.|+|++|+|||+||+.+++.+...      + ...+.+.+....   .+..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~---~~~~   96 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREV---GGTP   96 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHH---CSCH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccC---CCCH
Confidence            6799999999999987764  23345789999999999999999999987443      2 333344433322   1022


Q ss_pred             HHHHHHHHHHHhcccCC-CccchhhhHHHHHHHHhcCceEEEEcCCCCHH------H-HHHHhcCCCCCCCCcEEEEEcC
Q 038919          214 ISLQKQLISDLLKLADN-SIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE------Q-LRRLAGKRDWFGPGSRIIITTR  285 (483)
Q Consensus       214 ~~l~~~ll~~~~~~~~~-~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------~-~~~l~~~~~~~~~~~~iliTtR  285 (483)
                      ..+...++..+.+.... ...+.......+...+..++.+|||||++...      . +..+....    .+..+|+||+
T Consensus        97 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~  172 (384)
T 2qby_B           97 QAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISN  172 (384)
T ss_dssp             HHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECS
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEEC
Confidence            56666666665433221 12233455666777777766699999996543      2 44454432    6788888888


Q ss_pred             CHhHHhh------CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhC---CChHHH-HHHHHHh--C
Q 038919          286 DEHLLKL------HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG---GLPLAL-KVLGSFL--F  353 (483)
Q Consensus       286 ~~~~~~~------~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~---G~PLal-~~la~~l--~  353 (483)
                      .......      ......+.+++++.++..+++...+...........+..+.+++.++   |+|..+ ..+-...  .
T Consensus       173 ~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          173 DINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             STTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             CCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh
Confidence            6521110      01123899999999999999998753211011112245677888888   998743 3332221  1


Q ss_pred             ----CCCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCC-CCCHHHHHHHHHhCCCC------hhh
Q 038919          354 ----GRPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFK-GEKRDYVSKILDSCGFE------PVI  422 (483)
Q Consensus       354 ----~~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~-~~~~~~l~~~~~~~~~~------~~~  422 (483)
                          .-+...+..++.+..       ...+..+++.|++.++.++..++.... +........+...-+..      ...
T Consensus       253 ~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~  325 (384)
T 2qby_B          253 SGGGIIRKEHVDKAIVDYE-------QERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFSD  325 (384)
T ss_dssp             TSSSCCCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHHHH
T ss_pred             cCCCccCHHHHHHHHHHHh-------cchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHHHH
Confidence                134556666655542       245667789999999999988887111 11112233333332211      245


Q ss_pred             hHHHHhhCCceeEe
Q 038919          423 GIGVLIEKSLLTIC  436 (483)
Q Consensus       423 ~l~~L~~~sLi~~~  436 (483)
                      .+..|.+.|||+..
T Consensus       326 ~l~~L~~~gli~~~  339 (384)
T 2qby_B          326 IISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHTTSEEEE
T ss_pred             HHHHHHhCCCEEEE
Confidence            68899999999864

>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=99.67  E-value=2e-15  Score=149.35  Aligned_cols=283  Identities=16%  Similarity=0.098  Sum_probs=165.3

Q ss_pred             HhhhchhHHHHHHHHHhhcC--CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEecccccccCCcHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG--CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ..|+||+.+++.+.+++...  ....+.+.|+|++|+|||||++.+++.....+  ...+.+.+.....   .. ..+..
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~---~~-~~~~~   95 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQID---TP-YRVLA   95 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHC---SH-HHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCC---CH-HHHHH
Confidence            57999999999999988742  33457899999999999999999999876553  2233333332221   11 34444


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCH------HHHHHHhcCCCC-CCCCcEEEEEcCCHhH
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV------EQLRRLAGKRDW-FGPGSRIIITTRDEHL  289 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~------~~~~~l~~~~~~-~~~~~~iliTtR~~~~  289 (483)
                      .++..+.........+.......+...+.  +++.+||||+++..      +.+..+...... ...+..+|+||+....
T Consensus        96 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~  175 (386)
T 2qby_A           96 DLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKF  175 (386)
T ss_dssp             HHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGG
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCCh
Confidence            44433211111111223444555555554  34899999999543      233343322211 1345667888876543


Q ss_pred             HhhCC-------CcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhC---CChHHHHHHHHHhC------
Q 038919          290 LKLHR-------VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG---GLPLALKVLGSFLF------  353 (483)
Q Consensus       290 ~~~~~-------~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~---G~PLal~~la~~l~------  353 (483)
                      .....       ....+.+++++.++..+++...+...........+..+.+++.++   |+|..+..+.....      
T Consensus       176 ~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~  255 (386)
T 2qby_A          176 VDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERM  255 (386)
T ss_dssp             GGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             HhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhc
Confidence            22211       124799999999999999987653211111223456677888887   99985443332221      


Q ss_pred             C---CCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCC-C---CCHHHH----HHHHHh---CC--
Q 038919          354 G---RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFK-G---EKRDYV----SKILDS---CG--  417 (483)
Q Consensus       354 ~---~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~-~---~~~~~l----~~~~~~---~~--  417 (483)
                      +   -+...+..++....       ...+..++..+++.++.++..++.+.. +   ++...+    ..+...   ..  
T Consensus       256 ~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~~~~  328 (386)
T 2qby_A          256 KDTKVKEEYVYMAKEEIE-------RDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVT  328 (386)
T ss_dssp             TCSSCCHHHHHHHHHHHH-------HHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCCCCC
T ss_pred             CCCccCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCCCCC
Confidence            1   13444444444332       245677788999999999988885432 2   233222    222222   22  


Q ss_pred             -CChhhhHHHHhhCCceeEe
Q 038919          418 -FEPVIGIGVLIEKSLLTIC  436 (483)
Q Consensus       418 -~~~~~~l~~L~~~sLi~~~  436 (483)
                       ......++.|.+.|+|+..
T Consensus       329 ~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          329 QRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             HHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHHhCCCEEEE
Confidence             1234578999999999864

>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=99.65  E-value=8.3e-15  Score=145.13  Aligned_cols=305  Identities=14%  Similarity=0.094  Sum_probs=180.9

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      +.++||+.+++.+..++..    ..+..+.+.|+|++|+|||||++.+++.........+.+.+....    .....+..
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~----~~~~~~~~   92 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY----RNFTAIIG   92 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTC----CSHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccC----CCHHHHHH
Confidence            4799999999999998865    222234899999999999999999999876542222333332221    12255566


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCC--HHHHHHHhcCCCCCC----CCcEEEEEcCCHhHH
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAH--VEQLRRLAGKRDWFG----PGSRIIITTRDEHLL  290 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~--~~~~~~l~~~~~~~~----~~~~iliTtR~~~~~  290 (483)
                      .++..+.........+.......+...+.  +++.+||||+++.  .+.+..+...+....    .+..+|++|++....
T Consensus        93 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           93 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            66655432211112234444455555544  5689999999965  455555544433211    467788887765432


Q ss_pred             hhCC-------CcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHh---------CCChHHHHHHHHHhC-
Q 038919          291 KLHR-------VEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA---------GGLPLALKVLGSFLF-  353 (483)
Q Consensus       291 ~~~~-------~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~---------~G~PLal~~la~~l~-  353 (483)
                      ....       ....+.+++++.++..+++...+...........+..+.+++.+         +|+|..+..+..... 
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~  252 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAY  252 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHH
Confidence            2211       12368999999999999998876431111122346778899999         799866654433321 


Q ss_pred             -----C---CCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC---C--CCCHHHHHHHHHh----C
Q 038919          354 -----G---RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF---K--GEKRDYVSKILDS----C  416 (483)
Q Consensus       354 -----~---~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~---~--~~~~~~l~~~~~~----~  416 (483)
                           +   -+.............   ..    +...+..|++..+.++..++.+.   .  .++...+...+..    .
T Consensus       253 ~a~~~~~~~i~~~~v~~~~~~~~~---~~----~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~  325 (389)
T 1fnn_A          253 AAQQNGRKHIAPEDVRKSSKEVLF---GI----SEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEY  325 (389)
T ss_dssp             HHHHTTCSSCCHHHHHHHHHHHSC---CC----CHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCCCcCHHHHHHHHHHHhh---hh----HHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHc
Confidence                 1   123333333333321   11    23345678899999988888654   2  3454544433222    1


Q ss_pred             CC------ChhhhHHHHhhCCceeEecC-------CeE-------EccHHHHHHHHHHHhhh
Q 038919          417 GF------EPVIGIGVLIEKSLLTICES-------DRL-------WMHDLLLEMGRQIVRRQ  458 (483)
Q Consensus       417 ~~------~~~~~l~~L~~~sLi~~~~~-------~~~-------~mH~lvr~~~~~~~~~~  458 (483)
                      +.      .....++.|.+.|+|.....       |++       ..|++++.+...++.++
T Consensus       326 ~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~~  387 (389)
T 1fnn_A          326 GERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKEE  387 (389)
T ss_dssp             TCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHHh
Confidence            21      13357899999999987533       222       24677777766666554

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=99.64  E-value=5.1e-17  Score=138.55  Aligned_cols=84  Identities=18%  Similarity=0.286  Sum_probs=75.5

Q ss_pred             CchhhHHHHHHhC--CCcEeecCCCCCCCCCCchHHHHHhh-hcceEEEEeccccccchhhHHHHHHHHHHHhc-CCc-e
Q 038919            1 TFISHLYTALNDK--GIYVFRDDKQLEKGGSISPNLLKAIE-ESRISIIVLSRNYASSTWCLDELVKIVEYKNR-EDQ-I   75 (483)
Q Consensus         1 ~f~~~L~~~L~~~--gi~~f~d~~~~~~g~~~~~~l~~ai~-~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~-~~~-v   75 (483)
                      +|+.+|+.+|+++  |+++|+|++++.+|+++.++|.++|+ +|+++|+|+|++|++|.||+.|+..++.+... ++. |
T Consensus        29 ~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S~wc~~El~~a~~~~~~~~~~~v  108 (160)
T 2js7_A           29 QFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSKECDFQTKFALSLSPGAHQKRL  108 (160)
T ss_dssp             HHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHSHHHHHHHHHHHHHCTTHHHHTE
T ss_pred             HHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcCHHHHHHHHHHHHHHHccCCCEE
Confidence            4899999999995  69999999999999999999999999 79999999999999999999999999987532 334 9


Q ss_pred             EeeeecccC
Q 038919           76 FPIFYDVEP   84 (483)
Q Consensus        76 ~Pvf~~v~p   84 (483)
                      |||||+..+
T Consensus       109 IpV~~~~~~  117 (160)
T 2js7_A          109 IPIKYKAMK  117 (160)
T ss_dssp             EEEESSCCC
T ss_pred             EEEEEcccc
Confidence            999998653

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=99.61  E-value=2.1e-16  Score=134.59  Aligned_cols=84  Identities=20%  Similarity=0.320  Sum_probs=75.2

Q ss_pred             CchhhHHH-HHH-hCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccc-cchhhHHHHHHHHHHH-hcCCc-e
Q 038919            1 TFISHLYT-ALN-DKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYA-SSTWCLDELVKIVEYK-NREDQ-I   75 (483)
Q Consensus         1 ~f~~~L~~-~L~-~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~-~s~~cl~El~~~~~~~-~~~~~-v   75 (483)
                      +|+.||+. .|+ +.|+++|+|++++.+|+.+.++|.++|++|+.+|+|+|++|+ .|.||+.|+..++.+. ..++. |
T Consensus        26 ~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y~~~S~wc~~El~~a~~~~~~~~~~~v  105 (159)
T 1t3g_A           26 RFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYVVRRGWSIFELETRLRNMLVTGEIKV  105 (159)
T ss_dssp             HHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHHHHTTTTHHHHHSHHHHHHHHTTSSEE
T ss_pred             HHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccchhhcChHHHHHHHHHHHHHHhcCCCEE
Confidence            38889776 699 799999999999999999999999999999999999999997 9999999999999886 44456 9


Q ss_pred             EeeeecccC
Q 038919           76 FPIFYDVEP   84 (483)
Q Consensus        76 ~Pvf~~v~p   84 (483)
                      ||||+...+
T Consensus       106 I~I~~~~~~  114 (159)
T 1t3g_A          106 ILIECSELR  114 (159)
T ss_dssp             EEEECSCCC
T ss_pred             EEEEecccc
Confidence            999988544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.61  E-value=4.1e-14  Score=139.92  Aligned_cols=282  Identities=14%  Similarity=0.079  Sum_probs=167.8

Q ss_pred             HhhhchhHHHHHHHHHhhcC--CCCcEEEEEeCCCCCChhHHHHHHHHHhhccc-----ceeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG--CNDVRMIGIWGMGGLGKTTLARVVYDLISHEF-----DGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      ..|+||+.+++.+..++...  ....+.+.|+|++|+|||+||+.+++......     ...+.+.+....   . ....
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~---~-~~~~   94 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR---E-TPYR   94 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS---C-SHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC---C-CHHH
Confidence            57999999999999988542  34467899999999999999999998775432     333333333222   1 2256


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH-------HHHHHhcCCCCC--CCCcEEEEEc
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE-------QLRRLAGKRDWF--GPGSRIIITT  284 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-------~~~~l~~~~~~~--~~~~~iliTt  284 (483)
                      +...++..+.........+.......+...+.  +++++||||+++...       .+..+.......  ..+..+|+||
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t  174 (387)
T 2v1u_A           95 VASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGIT  174 (387)
T ss_dssp             HHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEEC
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEE
Confidence            66666666533222222234444555666653  468899999997543       233333322111  3456777777


Q ss_pred             CCHhH--------HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhC---CChHHHHHHHHH-h
Q 038919          285 RDEHL--------LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAG---GLPLALKVLGSF-L  352 (483)
Q Consensus       285 R~~~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~---G~PLal~~la~~-l  352 (483)
                      +....        .... ....+.+++++.++..+++...+...........+..+.+++.++   |+|..+..+... .
T Consensus       175 ~~~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~  253 (387)
T 2v1u_A          175 NSLGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAG  253 (387)
T ss_dssp             SCSTTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             CCCchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            75522        1111 114789999999999999988753210011111245677888888   999443322221 1


Q ss_pred             ---C--C---CCHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCCCC---CCHHHHHH----HHHhCC
Q 038919          353 ---F--G---RPVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFFKG---EKRDYVSK----ILDSCG  417 (483)
Q Consensus       353 ---~--~---~~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~~~---~~~~~l~~----~~~~~~  417 (483)
                         .  +   -+...+..++....       ...+..++..|++.++.++..++.+..+   +....+.+    +....+
T Consensus       254 ~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (387)
T 2v1u_A          254 EIAERRREERVRREHVYSARAEIE-------RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLG  326 (387)
T ss_dssp             HHHHHTTCSCBCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcC
Confidence               1  1   23455555555442       2346677899999999998888754333   33332222    222222


Q ss_pred             C------ChhhhHHHHhhCCceeEe
Q 038919          418 F------EPVIGIGVLIEKSLLTIC  436 (483)
Q Consensus       418 ~------~~~~~l~~L~~~sLi~~~  436 (483)
                      .      .....++.|...|+++..
T Consensus       327 ~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          327 LEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            1      234568899999999874

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=99.61  E-value=3.5e-17  Score=138.15  Aligned_cols=82  Identities=20%  Similarity=0.300  Sum_probs=73.6

Q ss_pred             Cchhh-HHHHHHhC--CCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHH-HhcCCc-e
Q 038919            1 TFISH-LYTALNDK--GIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEY-KNREDQ-I   75 (483)
Q Consensus         1 ~f~~~-L~~~L~~~--gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~-~~~~~~-v   75 (483)
                      +|+.| |+.+|+++  |+++|+|++++.+|+++.++|.+||++|+++|+|+||+|+.|.||+.|+..++.+ ...++. |
T Consensus        18 ~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~wc~~El~~a~~~~~~~~~~~v   97 (149)
T 1fyx_A           18 YWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWXKYELDFSHFRLFDENNDAA   97 (149)
T ss_dssp             HHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHHHHSCCSCCTTCGGGTTCC
T ss_pred             HHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccchHHHHHHHHHHHHHhcCCCEE
Confidence            37887 99999987  9999999999999999999999999999999999999999999999999988753 334456 9


Q ss_pred             Eeeeecc
Q 038919           76 FPIFYDV   82 (483)
Q Consensus        76 ~Pvf~~v   82 (483)
                      |||||+.
T Consensus        98 Ipv~~~~  104 (149)
T 1fyx_A           98 ILILLEP  104 (149)
T ss_dssp             EEEESSC
T ss_pred             EEEEecC
Confidence            9999973

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=99.60  E-value=9.8e-17  Score=138.94  Aligned_cols=84  Identities=27%  Similarity=0.428  Sum_probs=71.3

Q ss_pred             Cchh-hHHHHHHh--CCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHH-hcCCc-e
Q 038919            1 TFIS-HLYTALND--KGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYK-NREDQ-I   75 (483)
Q Consensus         1 ~f~~-~L~~~L~~--~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~-~~~~~-v   75 (483)
                      +|+. +|+.+|++  +|+++|+|++++.+|+++.++|.+||++|+++|+|+||+|++|.||+.|+..++.+. ..+++ |
T Consensus        48 ~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S~wc~~El~~a~~~~~~~~~~~v  127 (178)
T 2j67_A           48 LWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEFYFAHHNLFHENSDHI  127 (178)
T ss_dssp             HHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHHTGGGTHHHHTTCC-------CE
T ss_pred             HHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEecccccccchHHHHHHHHHHHHHhcCCCEE
Confidence            3786 59999999  899999999999999999999999999999999999999999999999999998643 33455 9


Q ss_pred             EeeeecccC
Q 038919           76 FPIFYDVEP   84 (483)
Q Consensus        76 ~Pvf~~v~p   84 (483)
                      |||||+.-|
T Consensus       128 IpV~~~~i~  136 (178)
T 2j67_A          128 ILILLEPIP  136 (178)
T ss_dssp             EEEESSCCC
T ss_pred             EEEEecCCC
Confidence            999998433

>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=99.45  E-value=3.1e-12  Score=117.63  Aligned_cols=196  Identities=18%  Similarity=0.128  Sum_probs=118.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..++||+..++.+..++..+. ..+.+.|+|++|+||||||+.+++.+...+..... .       .... ... ..+..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~-~-------~~~~-~~~-~~~~~   91 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITAT-P-------CGVC-DNC-REIEQ   91 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSS-C-------CSCS-HHH-HHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC-C-------Cccc-HHH-HHHhc
Confidence            579999999999999987542 23588999999999999999999877543311000 0       0000 000 00000


Q ss_pred             H----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhHHh
Q 038919          223 D----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHLLK  291 (483)
Q Consensus       223 ~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~  291 (483)
                      .    +........... .....+.+.+     .+++.+|||||++.  ...+..+...+.....+..+|+||+......
T Consensus        92 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           92 GRFVDLIEIDAASRTKV-EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TCCSSEEEEETTCGGGH-HHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             cCCcceEEecCcccccH-HHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            0    000000000001 1111111111     24679999999964  4555555544433356788888887653211


Q ss_pred             --hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh
Q 038919          292 --LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL  352 (483)
Q Consensus       292 --~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l  352 (483)
                        .......+.+++++.++..+++...+......  ...+..+.+++.++|+|..+..+...+
T Consensus       171 ~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence              11224579999999999999998877543222  223567889999999999998776544

>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=99.38  E-value=9.8e-12  Score=112.58  Aligned_cols=184  Identities=13%  Similarity=0.118  Sum_probs=113.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++|++..++.+.+++....  .+.+.|+|++|+|||+||+.+++.+... +...+...+...   .. . .......+
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---~~-~-~~~~~~~~   89 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD---ER-G-IDVVRHKI   89 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTC---TT-C-HHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccc---cc-C-hHHHHHHH
Confidence            579999999999999998542  2348999999999999999999876433 232233222211   11 1 11111212


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHhHHh--hCCCcc
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEHLLK--LHRVEE  297 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~~~--~~~~~~  297 (483)
                      ........               ...+++.+|||||++..  .....+...+.....++.+|+||+......  ......
T Consensus        90 ~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~  154 (226)
T 2chg_A           90 KEFARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (226)
T ss_dssp             HHHHTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHhcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCc
Confidence            22111100               01256889999999643  334444333332356778888887653211  112234


Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                      .+.+++++.++..+++...+......  ...+....+++.++|+|..+..+..
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             eeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            78999999999999998876432221  2235677889999999997654433

>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=99.29  E-value=6.4e-11  Score=113.86  Aligned_cols=184  Identities=14%  Similarity=0.221  Sum_probs=112.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++|++..++.+.+++..+.  .+.+.|+|++|+|||++|+.+++.+... +...+...+...   ..+  ......++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~---~~~--~~~i~~~~   93 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD---DRG--IDVVRNQI   93 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS---CCS--HHHHHTHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcc---ccC--hHHHHHHH
Confidence            579999999999999988543  2338999999999999999999886432 222222222111   111  11122222


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhHH-h-hCCCc
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHLL-K-LHRVE  296 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~~-~-~~~~~  296 (483)
                      ..+.....               .+ .+++.++|+||++.  ......+...+.....++.+|+||....-. . .....
T Consensus        94 ~~~~~~~~---------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~  158 (323)
T 1sxj_B           94 KHFAQKKL---------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  158 (323)
T ss_dssp             HHHHHBCC---------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHhccc---------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhc
Confidence            22111000               01 34588999999975  333333333322224677888888764321 1 11234


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH-HHHHHH
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA-LKVLGS  350 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa-l~~la~  350 (483)
                      ..+++.+++.++..+++...+......  ...+....+++.++|+|.. +..+..
T Consensus       159 ~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          159 AILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             eEEeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            579999999999999998876432211  2235678899999999954 444433

>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=99.16  E-value=4.8e-10  Score=107.91  Aligned_cols=185  Identities=15%  Similarity=0.159  Sum_probs=112.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++|++..++.+..++..+  ..+.+.|+|++|+|||++|+.+++.+... +...+...+......     .......+
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~~~   97 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG-----INVIREKV   97 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH-----HHTTHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCc-----hHHHHHHH
Confidence            56999999999999998864  33348999999999999999999886432 111122222111000     00001111


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhHH-hh-CCCcc
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHLL-KL-HRVEE  297 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~~-~~-~~~~~  297 (483)
                      ........               ...+++.++|+||++.  .+....+...+.....++++|+||...... .. .....
T Consensus        98 ~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  162 (327)
T 1iqp_A           98 KEFARTKP---------------IGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  162 (327)
T ss_dssp             HHHHHSCC---------------GGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHhhCC---------------cCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCc
Confidence            11100000               0125678999999964  344444443333335677888888765321 11 11234


Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSF  351 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~  351 (483)
                      .+.+.+++.++..+++...+.....  ....+..+.+++.++|+|..+..+...
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~  214 (327)
T 1iqp_A          163 IFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMRRAINILQA  214 (327)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            7899999999999999887643322  123466788999999999876554433

>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=99.15  E-value=2.1e-09  Score=103.27  Aligned_cols=254  Identities=20%  Similarity=0.104  Sum_probs=145.6

Q ss_pred             HhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..|+|++..++.+..++..   .......+.|+|++|+|||+||+.+++.....    +.+.+....    .....+.  
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~----~~~~~~~~~----~~~~~l~--   81 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN----LRVTSGPAI----EKPGDLA--   81 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCC----EEEECTTTC----CSHHHHH--
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCC----EEEEecccc----CChHHHH--
Confidence            5799999999998887753   11234578999999999999999999876432    222222111    1101111  


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCC------------------CCCcE
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWF------------------GPGSR  279 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~------------------~~~~~  279 (483)
                        ..                  +... ..++.+|+||+++..  .....+...+...                  .++..
T Consensus        82 --~~------------------l~~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~  140 (324)
T 1hqc_A           82 --AI------------------LANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  140 (324)
T ss_dssp             --HH------------------HTTT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCE
T ss_pred             --HH------------------HHHh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEE
Confidence              11                  0000 135679999999753  2333332111100                  12456


Q ss_pred             EEEEcCCHhHHh-h-C-CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCC-
Q 038919          280 IIITTRDEHLLK-L-H-RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGR-  355 (483)
Q Consensus       280 iliTtR~~~~~~-~-~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~-  355 (483)
                      +|.||....... . . .....+.+++++.++..+++...+......  ...+....++++++|+|..+..+...+... 
T Consensus       141 ~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a  218 (324)
T 1hqc_A          141 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRLFRRVRDFA  218 (324)
T ss_dssp             EEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHSCSCHHHHHHHHHHHTTTS
T ss_pred             EEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHccCCHHHHHHHHHHHHHHH
Confidence            666666432111 1 1 122578999999999999998876443221  234667889999999999887776554321 


Q ss_pred             --------CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC--CCCCHHHHHHHHHhCCCChhhhHH
Q 038919          356 --------PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF--KGEKRDYVSKILDSCGFEPVIGIG  425 (483)
Q Consensus       356 --------~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l~  425 (483)
                              +.......+..+            ......+++.++..+..+....  +.+....+...+..+.......++
T Consensus       219 ~~~~~~~i~~~~~~~~~~~~------------~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l~  286 (324)
T 1hqc_A          219 QVAGEEVITRERALEALAAL------------GLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVHE  286 (324)
T ss_dssp             TTTSCSCCCHHHHHHHHHHH------------TCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHTH
T ss_pred             HHhcCCCCCHHHHHHHHHHh------------cccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHh
Confidence                    122222222221            2223567777777777665432  335666666655332222222233


Q ss_pred             H-HhhCCceeEecCCeE
Q 038919          426 V-LIEKSLLTICESDRL  441 (483)
Q Consensus       426 ~-L~~~sLi~~~~~~~~  441 (483)
                      . +++.++|+..+.|+.
T Consensus       287 ~~~i~~~li~~~~~g~~  303 (324)
T 1hqc_A          287 PYLIRQGLLKRTPRGRV  303 (324)
T ss_dssp             HHHHHTTSEEEETTEEE
T ss_pred             HHHHHhcchhcCCccce
Confidence            3 888999988755543

>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=99.09  E-value=3.9e-09  Score=101.09  Aligned_cols=184  Identities=12%  Similarity=0.092  Sum_probs=114.0

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc-ccceeEEEEecccccccCCcHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH-EFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ...++|++..++.+.+++..+  ..+.+.|+|++|+|||++|+.+++.+.. .+...+...+.......... ......+
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   92 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVV-RHKIKEF   92 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTS-SHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHH-HHHHHHH
Confidence            367999999999999988754  2334899999999999999999987632 22222222222211110011 1111111


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhH-Hh-hCCCc
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHL-LK-LHRVE  296 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~-~~-~~~~~  296 (483)
                      .    ....               ...+++.++|+|+++.  .+....+...+.....++.+|+||....- .. .....
T Consensus        93 ~----~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~  153 (319)
T 2chq_A           93 A----RTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRC  153 (319)
T ss_dssp             H----HSCC---------------SSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTC
T ss_pred             H----hcCC---------------CCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhC
Confidence            0    0000               0025678999999964  35556666666555567788888775431 11 11233


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la  349 (483)
                      ..+++.+++.++..+++...+......  ...+....+++.++|++..+....
T Consensus       154 ~~i~~~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          154 AVFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTCCC--BCHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            579999999999999998876443322  234567888999999998665443

>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=99.02  E-value=6.2e-09  Score=102.07  Aligned_cols=194  Identities=19%  Similarity=0.136  Sum_probs=112.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..++|++..++.+...+..+. ..+.+.|+|++|+||||+|+.+++.+.......         ....+.... ...+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~---------~~~~~~~~~-~~~~~~   84 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCGVCDN-CREIEQ   84 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC---------SSCCSSSHH-HHHHHT
T ss_pred             hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC---------CCCCcccHH-HHHHhc
Confidence            469999999999999987542 235789999999999999999998764322100         000000000 000000


Q ss_pred             H----HhcccCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhH-H
Q 038919          223 D----LLKLADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHL-L  290 (483)
Q Consensus       223 ~----~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~-~  290 (483)
                      .    +............. ...+.+.+     .+++.++|+||++.  ......+...+.....+..+|++|.+..- .
T Consensus        85 ~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  163 (373)
T 1jr3_A           85 GRFVDLIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (373)
T ss_dssp             SCCSSCEEEETTCSCCSSC-HHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSC
T ss_pred             cCCCceEEecccccCCHHH-HHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCc
Confidence            0    00000000011111 12222222     24578999999964  34445554433333456777777764431 1


Q ss_pred             -hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          291 -KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       291 -~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                       ........+++.+++.++..+++...+......  ...+.+..+++.++|+|..+..+..
T Consensus       164 ~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~--~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          164 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence             111234678999999999999998766332211  2235678899999999998876543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.01  E-value=5.2e-09  Score=99.03  Aligned_cols=170  Identities=12%  Similarity=0.018  Sum_probs=99.5

Q ss_pred             HhhhchhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHH
Q 038919          143 KELVGIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVI  214 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~  214 (483)
                      ..+.||+.|++.+...|..  ..+..+.+.|+|++|+|||++++.+++.+....      ...+...|.....+   . .
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t---~-~   95 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAG---M-D   95 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC------H
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCC---H-H
Confidence            4589999999999987764  234567899999999999999999999885432      11222233222222   2 5


Q ss_pred             HHHHHHHHHHhcccCCCccchhhhHHHHHHHH---hcCceEEEEcCCCCH---HHHHHHhcCCCCCCCCcEEEEEcCCH-
Q 038919          215 SLQKQLISDLLKLADNSIRNVYDGINMIGRRL---RQKKVLLVIDDVAHV---EQLRRLAGKRDWFGPGSRIIITTRDE-  287 (483)
Q Consensus       215 ~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~---~~~~~l~~~~~~~~~~~~iliTtR~~-  287 (483)
                      .+...++.++.+.... .......+..+...+   .+++++++||+++..   +.+..++...........||.++... 
T Consensus        96 ~~~~~I~~~L~g~~~~-~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A           96 ALYEKIWFAISKENLC-GDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             HHHHHHHHHHSCCC---CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             HHHHHHHHHhcCCCCC-chHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcc
Confidence            6667777776543211 111222223233322   457899999999753   44444432111001222334334322 


Q ss_pred             --h-HH-----hhCCCcceEecCCCChHHHHHHHHHhhc
Q 038919          288 --H-LL-----KLHRVEEVFKLEALTYDEAFQLFCLKAF  318 (483)
Q Consensus       288 --~-~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~  318 (483)
                        . .+     ..+ ....+.++|++.+|-.+++..++.
T Consensus       175 ~~~~~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          175 TIREQINIMPSLKA-HFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             CCHHHHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cchhhcchhhhccC-CceEEEeCCCCHHHHHHHHHHHHH
Confidence              1 11     111 124689999999999999988764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.01  E-value=1e-08  Score=99.14  Aligned_cols=256  Identities=16%  Similarity=0.089  Sum_probs=146.7

Q ss_pred             HhhhchhHHHHHHHHHhhcC---CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG---CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..++|++..++.+..++...   ....+.+.|+|++|+|||+||+.+++.....|    ...+....    .. ..-...
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~----~~~~~~~~----~~-~~~~~~   99 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI----KTTAAPMI----EK-SGDLAA   99 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE----EEEEGGGC----CS-HHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe----EEecchhc----cc-hhHHHH
Confidence            67999999999999887642   23345689999999999999999988764432    22211111    00 110111


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCC------------------CCCcE
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWF------------------GPGSR  279 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~------------------~~~~~  279 (483)
                      .                     +..  ..++.+|+||+++..  .....+...+...                  .++..
T Consensus       100 ~---------------------~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (338)
T 3pfi_A          100 I---------------------LTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFT  156 (338)
T ss_dssp             H---------------------HHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCE
T ss_pred             H---------------------HHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeE
Confidence            1                     100  245679999999642  3333332211100                  12355


Q ss_pred             EEEEcCCHhHHh---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh----
Q 038919          280 IIITTRDEHLLK---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL----  352 (483)
Q Consensus       280 iliTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l----  352 (483)
                      +|.+|.......   .......+.+++++.++..+++...+.....  ....+....+++.+.|+|-.+..+...+    
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~--~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a  234 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK--TCEEKAALEIAKRSRSTPRIALRLLKRVRDFA  234 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC--EECHHHHHHHHHTTTTCHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            666665432111   1123367999999999999999877643321  2234667888889999997665544332    


Q ss_pred             --CCC---CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC-CCCCHHHHHHHHHhCCCChhhhHH-
Q 038919          353 --FGR---PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF-KGEKRDYVSKILDSCGFEPVIGIG-  425 (483)
Q Consensus       353 --~~~---~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~-~~~~~~~l~~~~~~~~~~~~~~l~-  425 (483)
                        .+.   +.......+..            +..+...++..++.++..++-.. .......+...+..+.......++ 
T Consensus       235 ~~~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~l~~  302 (338)
T 3pfi_A          235 DVNDEEIITEKRANEALNS------------LGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDVIEP  302 (338)
T ss_dssp             HHTTCSEECHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHTTHH
T ss_pred             HhhcCCccCHHHHHHHHHH------------hCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhH
Confidence              111   12222222221            22233456666666776666552 224567776665433333333455 


Q ss_pred             HHhhCCceeEecCCeEEcc
Q 038919          426 VLIEKSLLTICESDRLWMH  444 (483)
Q Consensus       426 ~L~~~sLi~~~~~~~~~mH  444 (483)
                      .|++.++|.....|+..-.
T Consensus       303 ~l~~~gli~~~~~g~~~t~  321 (338)
T 3pfi_A          303 YLLANGYIERTAKGRIASA  321 (338)
T ss_dssp             HHHHTTSEEEETTEEEECH
T ss_pred             HHHHcCceecCCCcccccH
Confidence            7899999998877766543

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=98.94  E-value=4.7e-10  Score=122.13  Aligned_cols=84  Identities=15%  Similarity=0.307  Sum_probs=73.2

Q ss_pred             ch-hhHHHHHHh-----CCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHH-hcCCc
Q 038919            2 FI-SHLYTALND-----KGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYK-NREDQ   74 (483)
Q Consensus         2 f~-~~L~~~L~~-----~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~-~~~~~   74 (483)
                      |+ .+|...||.     .|+++|++++|+.+|+.+.+.|.+||++||.+|+|+|++|+.|.||..|+..++.+. .+++.
T Consensus       684 ~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~~s~wc~~e~~~a~~~~~~~~~~  763 (844)
T 3j0a_A          684 WVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLRDGWCLEAFSYAQGRCLSDLNS  763 (844)
T ss_dssp             HHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHHHHTSTTHHHHHHHSCCCCSSCT
T ss_pred             HHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEeccccccChHHHHHHHHHHHHHHHhcCC
Confidence            44 568889985     699999999999999999999999999999999999999999999999999887654 34445


Q ss_pred             -eEeeeecccCc
Q 038919           75 -IFPIFYDVEPT   85 (483)
Q Consensus        75 -v~Pvf~~v~p~   85 (483)
                       +|||||+.-|.
T Consensus       764 ~~i~i~~~~~~~  775 (844)
T 3j0a_A          764 ALIMVVVGSLSQ  775 (844)
T ss_dssp             TEEEEESSCCCS
T ss_pred             cEEEEEeccCCh
Confidence             99999986543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.88  E-value=1.1e-08  Score=89.79  Aligned_cols=48  Identities=15%  Similarity=0.223  Sum_probs=41.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            46999999999999988753  3466899999999999999999987643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.88  E-value=3.7e-08  Score=92.72  Aligned_cols=178  Identities=16%  Similarity=0.199  Sum_probs=104.0

Q ss_pred             HhhhchhHHHHHHHHHhhcC-----------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGAG-----------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..++|.+..++.|.+.+...           ....+.+.|+|++|+|||+||+.+++.....    ++..+.......  
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~----~~~v~~~~~~~~--   90 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT----FIRVVGSELVKK--   90 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE----EEEEEGGGGCCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC----EEEEehHHHHHh--
Confidence            57999999999998876431           1234679999999999999999999876432    222222211111  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhh-hHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCC--
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYD-GINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRD--  272 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~-~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~--  272 (483)
                      .                   ...... ....+.......+.+|+||+++..                ..+..++..+.  
T Consensus        91 ~-------------------~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~  151 (285)
T 3h4m_A           91 F-------------------IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF  151 (285)
T ss_dssp             S-------------------TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTT
T ss_pred             c-------------------cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCC
Confidence            0                   000111 112222333456789999999643                22333332211  


Q ss_pred             CCCCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC-ChHHHH
Q 038919          273 WFGPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG-LPLALK  346 (483)
Q Consensus       273 ~~~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLal~  346 (483)
                      ....+..||.||.......     .......+.+++++.++..+++...+.......+   .....++..+.| .|-.|.
T Consensus       152 ~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             CSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHHHH
T ss_pred             CCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHHHH
Confidence            1134567777887553221     1123357899999999999999887754332211   114566777777 455555


Q ss_pred             HH
Q 038919          347 VL  348 (483)
Q Consensus       347 ~l  348 (483)
                      .+
T Consensus       229 ~l  230 (285)
T 3h4m_A          229 AI  230 (285)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.86  E-value=8.9e-08  Score=93.65  Aligned_cols=203  Identities=14%  Similarity=0.045  Sum_probs=107.9

Q ss_pred             HhhhchhHHHHHHH---HHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLK---FLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~---~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..|||++...+.+.   ..+..+....+.+.|+|++|+|||+||+.+++.+....+.  +..+................+
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~  121 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF--TAIAGSEIFSLEMSKTEALTQ  121 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE--EEEEGGGGSCSSSCHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc--ccccchhhhhcccchhHHHHH
Confidence            57999999877654   4444443334689999999999999999999987643222  112221111111111233333


Q ss_pred             HHHHHhccc--------------------CC----C-cc----chhhhHHHHHHHH-----hcC----ceEEEEcCCCC-
Q 038919          220 LISDLLKLA--------------------DN----S-IR----NVYDGINMIGRRL-----RQK----KVLLVIDDVAH-  260 (483)
Q Consensus       220 ll~~~~~~~--------------------~~----~-~~----~~~~~~~~l~~~l-----~~~----~~LlVlDdv~~-  260 (483)
                      .+....+..                    ..    . ..    ........+....     .++    +.+|+||+++. 
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~l  201 (368)
T 3uk6_A          122 AFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHML  201 (368)
T ss_dssp             HHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGGS
T ss_pred             HHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcccc
Confidence            322211100                    00    0 00    0111111121111     122    46999999964 


Q ss_pred             -HHHHHHHhcCCCCCCCCcEEEEEcCC------------H-hH-HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCc
Q 038919          261 -VEQLRRLAGKRDWFGPGSRIIITTRD------------E-HL-LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPRE  325 (483)
Q Consensus       261 -~~~~~~l~~~~~~~~~~~~iliTtR~------------~-~~-~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~  325 (483)
                       .+....+...+...... .++++|..            . .+ .........+.+++++.++..+++...+......  
T Consensus       202 ~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~--  278 (368)
T 3uk6_A          202 DIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVE--  278 (368)
T ss_dssp             BHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCC--
T ss_pred             ChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCC--
Confidence             34444454444332223 34444421            0 00 0111223458999999999999998876543222  


Q ss_pred             hHHHHHHHHHHHhC-CChHHHHHHHH
Q 038919          326 EYVHLSQLVVNYAG-GLPLALKVLGS  350 (483)
Q Consensus       326 ~~~~~~~~i~~~~~-G~PLal~~la~  350 (483)
                      ...+....+++.+. |+|..+..+..
T Consensus       279 ~~~~~l~~l~~~~~~G~~r~~~~ll~  304 (368)
T 3uk6_A          279 MSEDAYTVLTRIGLETSLRYAIQLIT  304 (368)
T ss_dssp             BCHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            23466788899998 88876655443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.81  E-value=9.6e-09  Score=93.98  Aligned_cols=171  Identities=16%  Similarity=0.125  Sum_probs=99.3

Q ss_pred             Hhhhchh---HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIE---SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~---~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..|+|..   ..++.+..+....  ..+.+.|+|++|+|||+||+.+++..........++. .......  .       
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~-~~~~~~~--~-------   95 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP-LGIHASI--S-------   95 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-GGGGGGS--C-------
T ss_pred             hhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHHH--H-------
Confidence            4577633   5566666666533  3578999999999999999999998765433333332 2221110  0       


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------HHHHHHhcCCCCCCCC-cEEEEEcCCHh---
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------EQLRRLAGKRDWFGPG-SRIIITTRDEH---  288 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------~~~~~l~~~~~~~~~~-~~iliTtR~~~---  288 (483)
                                   .   ...    .. -.++.+|||||++..       +.+..++....  ..+ .++|+||+...   
T Consensus        96 -------------~---~~~----~~-~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~--~~~~~~ii~~~~~~~~~~  152 (242)
T 3bos_A           96 -------------T---ALL----EG-LEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVA--EQKRGSLIVSASASPMEA  152 (242)
T ss_dssp             -------------G---GGG----TT-GGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHH--HHCSCEEEEEESSCTTTT
T ss_pred             -------------H---HHH----Hh-ccCCCEEEEeccccccCCHHHHHHHHHHHHHHH--HcCCCeEEEEcCCCHHHH
Confidence                         0   000    00 134679999999532       12222221111  122 24777776321   


Q ss_pred             ------HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHH
Q 038919          289 ------LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGS  350 (483)
Q Consensus       289 ------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~  350 (483)
                            +.........+.+++++.++..+++...+......  ...+....+++.++|++-.+..+..
T Consensus       153 ~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          153 GFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQ--LPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             TCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCC--CCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHccCCHHHHHHHHH
Confidence                  11111112678999999999999998876432221  2246678899999999887765543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.81  E-value=1.3e-07  Score=96.56  Aligned_cols=186  Identities=16%  Similarity=0.184  Sum_probs=103.5

Q ss_pred             HhhhchhHHHHHHHHHhhcC---------------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc
Q 038919          143 KELVGIESRLEKLKFLMGAG---------------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY  207 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~---------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~  207 (483)
                      ..++|++..++.+.+++...               .+..+.+.|+|++|+|||++|+.+++...    ..+...+.... 
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~~~i~in~s~~-  113 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----YDILEQNASDV-  113 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----CEEEEECTTSC-
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----CCEEEEeCCCc-
Confidence            67999999999999988641               01246899999999999999999999772    22222222211 


Q ss_pred             ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--------HHHHHHhcCCCCCCCCcE
Q 038919          208 DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--------EQLRRLAGKRDWFGPGSR  279 (483)
Q Consensus       208 ~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--------~~~~~l~~~~~~~~~~~~  279 (483)
                         .. .......+.......  .....-..... .....+++.+|+||+++..        ..+..++..     .+..
T Consensus       114 ---~~-~~~~~~~i~~~~~~~--~~~~~~~~~~~-~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~-----~~~~  181 (516)
T 1sxj_A          114 ---RS-KTLLNAGVKNALDNM--SVVGYFKHNEE-AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-----TSTP  181 (516)
T ss_dssp             ---CC-HHHHHHTGGGGTTBC--CSTTTTTC-----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-----CSSC
T ss_pred             ---ch-HHHHHHHHHHHhccc--cHHHHHhhhhh-hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh-----cCCC
Confidence               11 222222211111100  00000000000 0001357889999999532        334444332     2334


Q ss_pred             EEEEcCCHh---HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          280 IIITTRDEH---LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       280 iliTtR~~~---~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      ||+++.+..   +.........+.+++++.++..+++...+.......  ..+....|++.++|++-.+..
T Consensus       182 iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i--~~~~l~~la~~s~GdiR~~i~  250 (516)
T 1sxj_A          182 LILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKL--DPNVIDRLIQTTRGDIRQVIN  250 (516)
T ss_dssp             EEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC--CTTHHHHHHHHTTTCHHHHHH
T ss_pred             EEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCcHHHHHH
Confidence            555444321   222223345789999999999999877664322111  124577889999997654433

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.77  E-value=9.8e-08  Score=92.70  Aligned_cols=192  Identities=11%  Similarity=0.109  Sum_probs=109.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc--ccceeEEEEecccccccCCcHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH--EFDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ..++|++..++.+..++..+..  +.+.|+|++|+||||+|+.+++.+..  .+...+...+...   ..+  .....+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~---~~~--~~~~~~~  109 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANL--PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD---ERG--ISIVREK  109 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTC--CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS---CCC--HHHHTTH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCC--CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc---ccc--hHHHHHH
Confidence            5799999999999999875432  33899999999999999999987642  1222222222211   111  1222222


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHhH-Hhh-CCCc
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEHL-LKL-HRVE  296 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~~-~~~-~~~~  296 (483)
                      ...............     .........+.+|++|+++.  ......+...+.......++|++|....- ... ....
T Consensus       110 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~  184 (353)
T 1sxj_D          110 VKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  184 (353)
T ss_dssp             HHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccC
Confidence            222111100000000     00001123557999999964  33333343333222456677777654421 111 1122


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      ..+.+.+++.++..+.+...+......  ...+..+.+++.++|+|..+..+
T Consensus       185 ~~i~~~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          185 SKFRFKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             ceEEeCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            478999999999999998876433221  22466888999999999875544

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.76  E-value=4e-07  Score=84.99  Aligned_cols=147  Identities=15%  Similarity=0.110  Sum_probs=80.8

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      ...+.+.|+|++|+|||+||+.+++.....|    ...+...  ...+.....                 ........+.
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~----~~i~~~~--~~~g~~~~~-----------------~~~~~~~~~~  118 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEESNFPF----IKICSPD--KMIGFSETA-----------------KCQAMKKIFD  118 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHHTCSE----EEEECGG--GCTTCCHHH-----------------HHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHhCCCE----EEEeCHH--HhcCCchHH-----------------HHHHHHHHHH
Confidence            3467899999999999999999999753321    1111111  000000000                 0011111222


Q ss_pred             HHHhcCceEEEEcCCCCH---------------HHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh---C-CCcceEecCCC
Q 038919          244 RRLRQKKVLLVIDDVAHV---------------EQLRRLAGKRDWFGPGSRIIITTRDEHLLKL---H-RVEEVFKLEAL  304 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~~---------------~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~---~-~~~~~~~l~~L  304 (483)
                      .....++.+|+||+++..               ..+..+.......+....||.||..+..+..   . .....+.++++
T Consensus       119 ~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l  198 (272)
T 1d2n_A          119 DAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNI  198 (272)
T ss_dssp             HHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCE
T ss_pred             HHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCc
Confidence            233466889999998643               2233333332222334556778877654433   1 12456899999


Q ss_pred             Ch-HHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC
Q 038919          305 TY-DEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG  340 (483)
Q Consensus       305 ~~-~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G  340 (483)
                      +. ++..+++....   ..    ..+....+++.+.|
T Consensus       199 ~~r~~i~~i~~~~~---~~----~~~~~~~l~~~~~g  228 (272)
T 1d2n_A          199 ATGEQLLEALELLG---NF----KDKERTTIAQQVKG  228 (272)
T ss_dssp             EEHHHHHHHHHHHT---CS----CHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHhcC---CC----CHHHHHHHHHHhcC
Confidence            98 66666665432   11    13456778888887

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.74  E-value=5.1e-07  Score=83.64  Aligned_cols=183  Identities=15%  Similarity=0.129  Sum_probs=100.8

Q ss_pred             HhhhchhHHHHHHHHHhhc---C-------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA---G-------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.+.+++..   .       ....+.+.|+|++|+|||+||+.+++.....    ++..+.........-
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~----~~~~~~~~~~~~~~~   81 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP----FLAMAGAEFVEVIGG   81 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC----EEEEETTTTSSSSTT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC----EEEechHHHHhhccC
Confidence            4578888887777665421   1       1234568899999999999999999976433    222222221111000


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-----------------HHHHHHhcCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-----------------EQLRRLAGKRDW--  273 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----------------~~~~~l~~~~~~--  273 (483)
                                          .........+.......+.+|+||+++..                 ..+..++..+..  
T Consensus        82 --------------------~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  141 (262)
T 2qz4_A           82 --------------------LGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMG  141 (262)
T ss_dssp             --------------------HHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCC
T ss_pred             --------------------hhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcC
Confidence                                00111112233333456899999999754                 122333322111  


Q ss_pred             CCCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHH
Q 038919          274 FGPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKV  347 (483)
Q Consensus       274 ~~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~  347 (483)
                      ...+..||.||........     ......+.+++.+.++-.+++...+....... ........+++.+.|.+- .|..
T Consensus       142 ~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~-~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          142 TTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQ-SSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             TTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCB-THHHHHHHHHHTCTTCCHHHHHH
T ss_pred             CCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCc-chhhHHHHHHHHCCCCCHHHHHH
Confidence            1235566667765432211     12335788999999999999988764433222 222234677888887754 5554


Q ss_pred             HHH
Q 038919          348 LGS  350 (483)
Q Consensus       348 la~  350 (483)
                      +..
T Consensus       221 l~~  223 (262)
T 2qz4_A          221 ICN  223 (262)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.73  E-value=1.1e-07  Score=92.53  Aligned_cols=196  Identities=11%  Similarity=0.046  Sum_probs=104.7

Q ss_pred             HhhhchhHHHHHHHHHh-hcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecc-----------------
Q 038919          143 KELVGIESRLEKLKFLM-GAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVK-----------------  204 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L-~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~-----------------  204 (483)
                      ..++|.+..++.+.+++ ..+. ... +.|+|++|+||||+++.++..+.....+.+.+....                 
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~   91 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSP   91 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECS
T ss_pred             HHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeeccc
Confidence            67999999999999888 5332 233 899999999999999999986532222211111000                 


Q ss_pred             ---c-ccccCCc-HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCC
Q 038919          205 ---E-KYDKEGS-VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPG  277 (483)
Q Consensus       205 ---~-~~~~~~~-~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~  277 (483)
                         . .....+. ......+.+..+......     .... .+ ..+.+++-++|||+++..  .....+...+.....+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~  164 (354)
T 1sxj_E           92 YHLEITPSDMGNNDRIVIQELLKEVAQMEQV-----DFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKN  164 (354)
T ss_dssp             SEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTT
T ss_pred             ceEEecHhhcCCcchHHHHHHHHHHHHhccc-----cccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCC
Confidence               0 0000000 000111222221110000     0000 00 002346779999999643  3333333322222456


Q ss_pred             cEEEEEcCCHh-HHh-hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchH-HHHHHHHHHHhCCChHHHHHHH
Q 038919          278 SRIIITTRDEH-LLK-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEY-VHLSQLVVNYAGGLPLALKVLG  349 (483)
Q Consensus       278 ~~iliTtR~~~-~~~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~-~~~~~~i~~~~~G~PLal~~la  349 (483)
                      +.+|++|.+.. +.. .......+++++++.++..+.+...+......  .. .+.+..|++.++|++..+..+.
T Consensus       165 ~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          165 IRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             EEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            77887776532 111 11233679999999999999998776432211  11 2567889999999997665443

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.72  E-value=6.8e-07  Score=86.89  Aligned_cols=182  Identities=11%  Similarity=0.035  Sum_probs=104.5

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+..++.|.+.+..          .....+.+.|+|++|+|||+||+.+++....    .++..+........  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~----~~~~i~~~~l~~~~--  157 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA----TFFSISASSLTSKW--  157 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC----EEEEEEGGGGCCSS--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC----eEEEEehHHhhccc--
Confidence            5799999999999887642          1123567999999999999999999987532    23333332221110  


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCC----CCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKR----DWF  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~----~~~  274 (483)
                                         ......... .+......++.+|+||+++..             .....++..+    ...
T Consensus       158 -------------------~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  218 (357)
T 3d8b_A          158 -------------------VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSS  218 (357)
T ss_dssp             -------------------TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----C
T ss_pred             -------------------cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccC
Confidence                               000111111 122222357889999999532             1122222211    111


Q ss_pred             CCCcEEEEEcCCHhHHh---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC-ChHHHHHHHH
Q 038919          275 GPGSRIIITTRDEHLLK---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG-LPLALKVLGS  350 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~la~  350 (483)
                      ..+..||.||.....+.   .......+.++..+.++..+++...+......  ...+....+++.+.| .+-.|..+..
T Consensus       219 ~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          219 EDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC--LSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC--CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC--ccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            23455666666432111   11233467899999999999988776432211  123567788888988 5666766654


Q ss_pred             H
Q 038919          351 F  351 (483)
Q Consensus       351 ~  351 (483)
                      .
T Consensus       297 ~  297 (357)
T 3d8b_A          297 E  297 (357)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.71  E-value=1.2e-07  Score=94.88  Aligned_cols=183  Identities=17%  Similarity=0.138  Sum_probs=103.2

Q ss_pred             Hhhh-chhHHH--HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccccee-EEEEecccccccCCcHHHHHH
Q 038919          143 KELV-GIESRL--EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGS-SFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~v-GR~~~l--~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ..|| |....+  ..+........ ....+.|+|++|+||||||+.+++.+...++.. +.+.+.          ..+..
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~-~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~----------~~~~~  173 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPG-RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS----------EKFLN  173 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTT-SSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEH----------HHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCC-CCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH----------HHHHH
Confidence            4566 654433  23333333322 256899999999999999999999876554322 222211          22223


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----HHHHHHhcCCCC-CCCCcEEEEEcCCH------
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----EQLRRLAGKRDW-FGPGSRIIITTRDE------  287 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----~~~~~l~~~~~~-~~~~~~iliTtR~~------  287 (483)
                      .+...+...          ....+...++.++.+|+|||++..    ...+.++..+.. ...|..||+||.+.      
T Consensus       174 ~~~~~~~~~----------~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~  243 (440)
T 2z4s_A          174 DLVDSMKEG----------KLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSE  243 (440)
T ss_dssp             HHHHHHHTT----------CHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSS
T ss_pred             HHHHHHHcc----------cHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHH
Confidence            333332111          112233344446789999999432    222222221110 13567888888763      


Q ss_pred             ---hHHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          288 ---HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       288 ---~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                         .+...+.....+.+++++.++-.+++...+......  ...+....|+..++|++--+..+
T Consensus       244 l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~--i~~e~l~~la~~~~gn~R~l~~~  305 (440)
T 2z4s_A          244 FQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_dssp             CCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHCCSCHHHHHHH
T ss_pred             HHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHHHH
Confidence               122222233568899999999999998876432211  11244677889999999766544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.69  E-value=1.3e-07  Score=90.10  Aligned_cols=151  Identities=14%  Similarity=0.121  Sum_probs=88.2

Q ss_pred             hhhchhHHHHHHHHHhhc-------------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc---eeEEEEeccccc
Q 038919          144 ELVGIESRLEKLKFLMGA-------------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD---GSSFLADVKEKY  207 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~-------------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~  207 (483)
                      .++|.+...+.+.+.+..             .......+.|+|++|+|||+||+.+++.+.....   ..+...+.....
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            588888888887765431             1233457999999999999999999987654321   122222221111


Q ss_pred             ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCC-----------CHHHHHHHhcCCCCCCC
Q 038919          208 DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVA-----------HVEQLRRLAGKRDWFGP  276 (483)
Q Consensus       208 ~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~-----------~~~~~~~l~~~~~~~~~  276 (483)
                      ..  .            .      ..........+..   .++.+|+||+++           +......|+..+.....
T Consensus       112 ~~--~------------~------g~~~~~~~~~~~~---~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~  168 (309)
T 3syl_A          112 GQ--Y------------I------GHTAPKTKEVLKR---AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRD  168 (309)
T ss_dssp             CS--S------------T------TCHHHHHHHHHHH---HTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTT
T ss_pred             hh--c------------c------cccHHHHHHHHHh---cCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCC
Confidence            00  0            0      0000111111111   135699999997           44445555544433345


Q ss_pred             CcEEEEEcCCHhH----------HhhCCCcceEecCCCChHHHHHHHHHhhcc
Q 038919          277 GSRIIITTRDEHL----------LKLHRVEEVFKLEALTYDEAFQLFCLKAFE  319 (483)
Q Consensus       277 ~~~iliTtR~~~~----------~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~  319 (483)
                      +..+|+||.....          ...  ....+.+++++.++-.+++...+..
T Consensus       169 ~~~~i~~~~~~~~~~~~~~~~~l~~R--~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          169 DLVVILAGYADRMENFFQSNPGFRSR--IAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             TCEEEEEECHHHHHHHHHHSTTHHHH--EEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCChHHHHHHHhhCHHHHHh--CCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            6777777764321          111  2357899999999999999877643

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.69  E-value=6.9e-07  Score=85.56  Aligned_cols=182  Identities=16%  Similarity=0.113  Sum_probs=105.4

Q ss_pred             HhhhchhHHHHHHHHHhh----------cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMG----------AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~----------~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.|.+.+.          ......+-+.|+|++|+|||+||+.+++.....    ++..+....      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~----~~~v~~~~l------   87 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST----FFSVSSSDL------   87 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE----EEEEEHHHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC----EEEEchHHH------
Confidence            579999999999988762          111224579999999999999999999876433    222222111      


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH-------------HHHHHHh---cCCCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV-------------EQLRRLA---GKRDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~---~~~~~~~  275 (483)
                              ....       ......... .+......++.+|+||+++..             .....++   ..+....
T Consensus        88 --------~~~~-------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  152 (322)
T 3eie_A           88 --------VSKW-------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  152 (322)
T ss_dssp             --------HTTT-------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSC
T ss_pred             --------hhcc-------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccC
Confidence                    0000       011111222 222233457789999999632             1122222   2221123


Q ss_pred             CCcEEEEEcCCHhHHhh---CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC-ChHHHHHHHHH
Q 038919          276 PGSRIIITTRDEHLLKL---HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG-LPLALKVLGSF  351 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~la~~  351 (483)
                      .+..||.||..+..+..   ......+.++..+.++-.+++..++......  ........+++.+.| .+-.|..+...
T Consensus       153 ~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~l~~la~~t~g~sg~di~~l~~~  230 (322)
T 3eie_A          153 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCV--LTKEDYRTLGAMTEGYSGSDIAVVVKD  230 (322)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC--CCHHHHHHHHHTTTTCCHHHHHHHHHH
T ss_pred             CceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            45666667765432110   1234567899999999999999887543322  122456778888877 45556555443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.66  E-value=1.6e-07  Score=93.71  Aligned_cols=175  Identities=18%  Similarity=0.202  Sum_probs=103.1

Q ss_pred             HhhhchhHHH---HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRL---EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l---~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..+||.+..+   ..|...+..+  ..+.+.|+|++|+||||||+.+++.....|.    ..+.    ...+. .. ...
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~----~l~a----~~~~~-~~-ir~   93 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVE----RISA----VTSGV-KE-IRE   93 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEE----EEET----TTCCH-HH-HHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeE----EEEe----ccCCH-HH-HHH
Confidence            5688998888   6777777754  3468999999999999999999997654321    1111    11111 11 111


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEE-EcCCHhH---HhhC
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIII-TTRDEHL---LKLH  293 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~ili-TtR~~~~---~~~~  293 (483)
                      ++...                 ......+++.+|+||+++..  .+.+.|+..+..  ....+|. ||.+...   ....
T Consensus        94 ~~~~a-----------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~  154 (447)
T 3pvs_A           94 AIERA-----------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALL  154 (447)
T ss_dssp             HHHHH-----------------HHHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHH
T ss_pred             HHHHH-----------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHh
Confidence            11110                 01112467889999999643  333333333321  2233443 5555421   1112


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCC-----CCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQ-----KPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~-----~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      ....++.+.+++.++..+++...+....     .......+..+.+++.++|++-.+..+
T Consensus       155 sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~  214 (447)
T 3pvs_A          155 SRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNT  214 (447)
T ss_dssp             TTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHH
T ss_pred             CceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHH
Confidence            2345789999999999999988764311     112234567788999999998766544

>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=98.65  E-value=1.4e-06  Score=84.44  Aligned_cols=179  Identities=16%  Similarity=0.107  Sum_probs=102.7

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.|.+.+..          .....+-+.|+|++|+|||+||+.+++.....    ++..+...       
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~----~~~v~~~~-------  119 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST----FFSVSSSD-------  119 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE----EEEEEHHH-------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC----EEEeeHHH-------
Confidence            5799999999998886621          11123468899999999999999999977432    22222111       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHH-HHHHHhcCceEEEEcCCCCHH-------------HHHHHhcC---CCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINM-IGRRLRQKKVLLVIDDVAHVE-------------QLRRLAGK---RDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~---~~~~~  275 (483)
                         +.        ...   .......... +......++.+|+||+++...             ....++..   +....
T Consensus       120 ---l~--------~~~---~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          120 ---LV--------SKW---MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             ---HH--------SCC------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             ---Hh--------hhh---cchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence               10        000   0011111222 222234578999999996421             12222221   11113


Q ss_pred             CCcEEEEEcCCHh-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC-ChHHHHHHH
Q 038919          276 PGSRIIITTRDEH-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG-LPLALKVLG  349 (483)
Q Consensus       276 ~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~la  349 (483)
                      .+..||.||..+.     +..  .....+.++..+.++-.+++..++......  ........|++.+.| .+-.|..+.
T Consensus       186 ~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~--~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSV--LTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBC--CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            4556666776442     222  344678899999999999998877443221  113456778888888 455565554


Q ss_pred             H
Q 038919          350 S  350 (483)
Q Consensus       350 ~  350 (483)
                      .
T Consensus       262 ~  262 (355)
T 2qp9_X          262 K  262 (355)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.64  E-value=2.7e-06  Score=81.34  Aligned_cols=183  Identities=16%  Similarity=0.099  Sum_probs=103.5

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.|.+.+..          .....+.+.|+|++|+|||+||+.+++....   ..++..+.......   
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~---~~~~~i~~~~l~~~---   85 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSDLVSK---   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS---CEEEEEECCSSCCS---
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC---CcEEEEEhHHHHhh---
Confidence            5688999888888875521          1122467999999999999999999987621   12222222211110   


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHH-HHHHHhcCceEEEEcCCCCH-------------HHHHHHhcC---CCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINM-IGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGK---RDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~---~~~~~  275 (483)
                                        ........... +......++.+|+||+++..             .....++..   +....
T Consensus        86 ------------------~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~  147 (322)
T 1xwi_A           86 ------------------WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDN  147 (322)
T ss_dssp             ------------------SCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCC
T ss_pred             ------------------hhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccC
Confidence                              00011111122 22223467899999999654             112223222   11113


Q ss_pred             CCcEEEEEcCCHhHHh---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHHHHHHH
Q 038919          276 PGSRIIITTRDEHLLK---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALKVLGSF  351 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~la~~  351 (483)
                      .+..||.||..+....   .......+.++..+.++-.+++..++......  ........|++.+.|. +-.|..+...
T Consensus       148 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--l~~~~l~~la~~t~G~sgadl~~l~~~  225 (322)
T 1xwi_A          148 DGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNS--LTEADFRELGRKTDGYSGADISIIVRD  225 (322)
T ss_dssp             TTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBC--CCHHHHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            4555666665432111   01334578899999999999998876433221  1234567788888887 5456655543

>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=98.59  E-value=8.9e-07  Score=84.88  Aligned_cols=168  Identities=15%  Similarity=0.108  Sum_probs=92.2

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSI  232 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~  232 (483)
                      ..+..+........+.+.|+|++|+||||||+.+++..... ...+...+.          ..+...+...+...     
T Consensus        24 ~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~~~~~i~~----------~~~~~~~~~~~~~~-----   87 (324)
T 1l8q_A           24 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GYRVIYSSA----------DDFAQAMVEHLKKG-----   87 (324)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TCCEEEEEH----------HHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CCEEEEEEH----------HHHHHHHHHHHHcC-----
Confidence            33444444332234678999999999999999999987543 222222222          22222222222110     


Q ss_pred             cchhhhHHHHHHHHhcCceEEEEcCCCCH----HHHHHHhcCCCC-CCCCcEEEEEcCCHh---------HHhhCCCcce
Q 038919          233 RNVYDGINMIGRRLRQKKVLLVIDDVAHV----EQLRRLAGKRDW-FGPGSRIIITTRDEH---------LLKLHRVEEV  298 (483)
Q Consensus       233 ~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----~~~~~l~~~~~~-~~~~~~iliTtR~~~---------~~~~~~~~~~  298 (483)
                       .    ...+...+ .++.+|+|||++..    ...+.+...+.. ...+..+|+|+.+..         +.........
T Consensus        88 -~----~~~~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~  161 (324)
T 1l8q_A           88 -T----INEFRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGIL  161 (324)
T ss_dssp             -C----HHHHHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEE
T ss_pred             -c----HHHHHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceE
Confidence             1    11122223 24679999999542    112222211100 124567888776431         1122223356


Q ss_pred             EecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          299 FKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       299 ~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      +.+++ +.++..+++...+......  ...+....+++.+ |++--+.
T Consensus       162 i~l~~-~~~e~~~il~~~~~~~~~~--l~~~~l~~l~~~~-g~~r~l~  205 (324)
T 1l8q_A          162 VEIEL-DNKTRFKIIKEKLKEFNLE--LRKEVIDYLLENT-KNVREIE  205 (324)
T ss_dssp             EECCC-CHHHHHHHHHHHHHHTTCC--CCHHHHHHHHHHC-SSHHHHH
T ss_pred             EEeCC-CHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHhC-CCHHHHH
Confidence            89999 9999999998877432221  2245677888888 8876543

>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=98.58  E-value=2e-06  Score=82.67  Aligned_cols=180  Identities=16%  Similarity=0.098  Sum_probs=100.2

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHH----Hh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISD----LL  225 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~----~~  225 (483)
                      ...+.+.+.+..+ .-.+.+.++|++|+|||++|+.+++.+.......         ....+. ......+...    +.
T Consensus         9 ~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~---------~~~c~~-c~~c~~~~~~~~~d~~   77 (334)
T 1a5t_A            9 PDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---------HKSCGH-CRGCQLMQAGTHPDYY   77 (334)
T ss_dssp             HHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---------TBCCSC-SHHHHHHHHTCCTTEE
T ss_pred             HHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCC---------CCCCCC-CHHHHHHhcCCCCCEE
Confidence            4455666666643 2246799999999999999999998765332110         000000 0000111000    00


Q ss_pred             cccC---CCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHh-hC
Q 038919          226 KLAD---NSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLK-LH  293 (483)
Q Consensus       226 ~~~~---~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~  293 (483)
                      ....   ......++. ..+.+.+     .+++-++|+|+++.  .+....|+..+..-.+++.+|++|.++. +.. ..
T Consensus        78 ~~~~~~~~~~~~i~~i-r~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~  156 (334)
T 1a5t_A           78 TLAPEKGKNTLGVDAV-REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (334)
T ss_dssp             EECCCTTCSSBCHHHH-HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             EEeccccCCCCCHHHH-HHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHh
Confidence            0000   001111111 1222222     24567999999974  3444555544443355677777776653 221 12


Q ss_pred             CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          294 RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      .....+++.+++.++..+++....   .    ...+.+..+++.++|.|..+..+
T Consensus       157 SRc~~~~~~~~~~~~~~~~L~~~~---~----~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          157 SRCRLHYLAPPPEQYAVTWLSREV---T----MSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHC---C----CCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             hcceeeeCCCCCHHHHHHHHHHhc---C----CCHHHHHHHHHHcCCCHHHHHHH
Confidence            344679999999999999998775   1    11245678899999999766443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.57  E-value=2.7e-06  Score=83.74  Aligned_cols=182  Identities=14%  Similarity=0.059  Sum_probs=101.5

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+..++.|..++..          .....+.+.|+|++|+|||+||+.++++...    .++..+.......  .
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~----~~~~v~~~~l~~~--~  188 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA----TFFNISAASLTSK--Y  188 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC----EEEEECSCCC------
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC----cEEEeeHHHhhcc--c
Confidence            6799999999999887621          0112467999999999999999999887543    2333322211110  0


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCC----CCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKR----DWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~----~~~~  275 (483)
                                  .+      .........+.......+.+|+||+++..             .....++..+    ....
T Consensus       189 ------------~g------~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          189 ------------VG------EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             ------------cc------hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence                        00      00011111122222456789999999643             1111222111    1112


Q ss_pred             CCcEEEEEcCCHhHHh---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHHHHH
Q 038919          276 PGSRIIITTRDEHLLK---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKVLGS  350 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~la~  350 (483)
                      ....||.||.....+.   .......+.++..+.++-.+++...+......  ...+....+++.+.|..- .|..+..
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP--LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC--SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3455666666432211   11233468899999999999998776443222  223456788888888544 6665544

>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=98.55  E-value=3.8e-06  Score=83.96  Aligned_cols=183  Identities=19%  Similarity=0.150  Sum_probs=106.2

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.|.+.+..          .....+.+.|+|++|+|||+||+.+++....   ..++..+...      +
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~---~~~~~v~~~~------l  204 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSD------L  204 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS---SEEEEECCC--------
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC---CCEEEEeHHH------H
Confidence            6789999999988876621          1123467999999999999999999987621   1222222111      1


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCC---CC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWF---GP  276 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~---~~  276 (483)
                              .....+.   .....   ...+.......+.+|+||+++..             .....++..+...   ..
T Consensus       205 --------~~~~~g~---~~~~~---~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  270 (444)
T 2zan_A          205 --------VSKWLGE---SEKLV---KNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  270 (444)
T ss_dssp             ------------------CCCTH---HHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCS
T ss_pred             --------Hhhhcch---HHHHH---HHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCC
Confidence                    0111111   11111   11222223467899999999754             2345565554432   34


Q ss_pred             CcEEEEEcCCHhHHh---hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHHHHHH
Q 038919          277 GSRIIITTRDEHLLK---LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALKVLGS  350 (483)
Q Consensus       277 ~~~iliTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~la~  350 (483)
                      +..||.||..+..+.   .......+.++..+.++-.+++..++......  ........|++.+.|. +-.|..+..
T Consensus       271 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--l~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS--LTEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             SCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEE--CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            566776776543211   11234578889999999999998876433211  1234567788888884 555555543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.55  E-value=1.9e-07  Score=81.39  Aligned_cols=48  Identities=15%  Similarity=0.215  Sum_probs=40.9

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             chhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            46999999999999988753  3456799999999999999999988754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.52  E-value=4.4e-06  Score=78.88  Aligned_cols=179  Identities=14%  Similarity=0.090  Sum_probs=102.0

Q ss_pred             HhhhchhHHHHHHHHHhhcC----------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGAG----------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+..++.+.+.+...          ....+.+.|+|++|+|||+||+.++......    ++..+........  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~----~~~i~~~~l~~~~--   94 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT----FLNISAASLTSKY--   94 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE----EEEEESTTTSSSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC----eEEeeHHHHhhcc--
Confidence            57999999999998876320          1124678999999999999999999876432    2222222111100  


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH-------------HHHHHHhc---CCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAG---KRDW--  273 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~---~~~~--  273 (483)
                                         ......... .+.......+.+|+||+++..             .....++.   ....  
T Consensus        95 -------------------~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  155 (297)
T 3b9p_A           95 -------------------VGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP  155 (297)
T ss_dssp             -------------------CSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC---
T ss_pred             -------------------cchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC
Confidence                               001111111 122223457889999999532             11112221   1111  


Q ss_pred             CCCCcEEEEEcCCHh-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHH
Q 038919          274 FGPGSRIIITTRDEH-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKV  347 (483)
Q Consensus       274 ~~~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~  347 (483)
                      .+.+..||.||..+.     +..  .....+.++..+.++-..++...+......  ...+....+++.+.|++- .|..
T Consensus       156 ~~~~v~vi~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          156 DGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSP--LDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             ---CEEEEEEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCC--SCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCCcEEEEeecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHH
Confidence            123456666777542     222  233567888888888888887766433221  123457788889999875 6655


Q ss_pred             HHH
Q 038919          348 LGS  350 (483)
Q Consensus       348 la~  350 (483)
                      +..
T Consensus       232 l~~  234 (297)
T 3b9p_A          232 LAK  234 (297)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=98.52  E-value=7e-07  Score=85.61  Aligned_cols=176  Identities=15%  Similarity=0.108  Sum_probs=101.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..++|.+..++.+.+++..+. ...++.++|++|+|||++|+.+++.+..    .+...+..    ..+  .......+.
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~~----~~~~i~~~----~~~--~~~i~~~~~   94 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVNA----DMMFVNGS----DCK--IDFVRGPLT   94 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTTE----EEEEEETT----TCC--HHHHHTHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhCC----CEEEEccc----ccC--HHHHHHHHH
Confidence            579999999999999998542 3467888999999999999999987642    22222211    111  112222222


Q ss_pred             HHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH---HHHHHHhcCCCCCCCCcEEEEEcCCHhHHhh--CCCcc
Q 038919          223 DLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV---EQLRRLAGKRDWFGPGSRIIITTRDEHLLKL--HRVEE  297 (483)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~--~~~~~  297 (483)
                      .......                ..+++.+|++|+++..   +....|...+.....++.+|+||....-...  .....
T Consensus        95 ~~~~~~~----------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~  158 (324)
T 3u61_B           95 NFASAAS----------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCR  158 (324)
T ss_dssp             HHHHBCC----------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSE
T ss_pred             HHHhhcc----------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCc
Confidence            2111100                0136789999999754   3444444333222356778888775431110  01224


Q ss_pred             eEecCCCChHHHHHH-------HHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          298 VFKLEALTYDEAFQL-------FCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L-------~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      .+++++++.++-.++       +...+......- ...+....+++.++|++..+.
T Consensus       159 ~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~-~~~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          159 VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAI-ADMKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCB-SCHHHHHHHHHHTCSCTTHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCC-CcHHHHHHHHHhCCCCHHHHH
Confidence            789999998874333       222222111111 112567778888999876443

>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=98.50  E-value=6.7e-06  Score=77.83  Aligned_cols=175  Identities=13%  Similarity=0.161  Sum_probs=99.4

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..++|.+...+.|.+++..           +-...+.+.|+|++|+|||+||+.+++.....    .+..+.        
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            4688999888888876542           12334679999999999999999999876422    222211        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHHH----------------HHHHhcCCCC--
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQ----------------LRRLAGKRDW--  273 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~----------------~~~l~~~~~~--  273 (483)
                        ..+.    ....+..   .   ......+.......+.+|+||+++....                ...++..+..  
T Consensus        83 --~~l~----~~~~g~~---~---~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~  150 (301)
T 3cf0_A           83 --PELL----TMWFGES---E---ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  150 (301)
T ss_dssp             --HHHH----HHHHTTC---T---THHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC
T ss_pred             --HHHH----hhhcCch---H---HHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc
Confidence              1221    2222211   1   1122233333446789999999975321                1222221111  


Q ss_pred             CCCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          274 FGPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       274 ~~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      ...+..||.||..+..+.     .......+.++..+.++-.+++...+.......+.   ....++..+.|.|-+
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~---~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          151 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV---DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             TTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC---CHHHHHHTCSSCCHH
T ss_pred             CCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc---hHHHHHHHcCCCCHH
Confidence            123566777776553221     11234578999999999999988776433211111   123455567776643

>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=98.50  E-value=1.7e-05  Score=76.25  Aligned_cols=257  Identities=19%  Similarity=0.175  Sum_probs=134.4

Q ss_pred             HhhhchhHHHHHHHHHhhcC---CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAG---CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      ..++|.+..++.+...+..+   ......++|+|++|+||||||+.++..+...+.    ....    ........+ . 
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~----~~sg----~~~~~~~~l-~-   94 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH----VTSG----PVLVKQGDM-A-   94 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE----EEET----TTCCSHHHH-H-
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE----EEec----hHhcCHHHH-H-
Confidence            57889888888887766532   123457999999999999999999997754321    1100    000000000 0 


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCC--------C----------CCcE
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWF--------G----------PGSR  279 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~--------~----------~~~~  279 (483)
                                          . +...+ .++.++++|+++..  ...+.+...+...        +          +...
T Consensus        95 --------------------~-~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           95 --------------------A-ILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             --------------------H-HHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             --------------------H-HHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeE
Confidence                                0 01111 23457778887532  2222221110000        0          1122


Q ss_pred             EEE-EcCCHhHHhh--CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHh----
Q 038919          280 III-TTRDEHLLKL--HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFL----  352 (483)
Q Consensus       280 ili-TtR~~~~~~~--~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l----  352 (483)
                      ++- |++...+...  ........+++.+.++-.+++.+.+.....  ....+.+..|++.+.|.|-.+..+...+    
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            333 4443222111  112235789999999999999887633222  1234668889999999997654443322    


Q ss_pred             --CCC---CHHHHHHHHHHhccCCCccHHHHHHHhhcCCcHHHHHHHhhhhcCC--CCCCHHHHHHHHHhCCCChhhhHH
Q 038919          353 --FGR---PVDEWTSTLERLKREPENEILDILQISFDGLKEAEKEIFLDVACFF--KGEKRDYVSKILDSCGFEPVIGIG  425 (483)
Q Consensus       353 --~~~---~~~~~~~~l~~l~~~~~~~v~~~l~~s~~~L~~~~k~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l~  425 (483)
                        .+.   +......++..+.            ..-..++...+.++..++-..  .+...+.+......+....+...+
T Consensus       231 ~~~~~~~It~~~v~~al~~~~------------~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~  298 (334)
T 1in4_A          231 TVVKADRINTDIVLKTMEVLN------------IDDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYE  298 (334)
T ss_dssp             HHHTCSSBCHHHHHHHHHHHT------------CCTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTH
T ss_pred             HHcCCCCcCHHHHHHHHHHhC------------CCcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHH
Confidence              111   1222223332221            111356666666665544332  234556666554332111222222


Q ss_pred             -HHhhCCceeEecCCeEEccH
Q 038919          426 -VLIEKSLLTICESDRLWMHD  445 (483)
Q Consensus       426 -~L~~~sLi~~~~~~~~~mH~  445 (483)
                       .|...|+|+....|+.....
T Consensus       299 ~~l~~~g~i~~~~~gr~~~~~  319 (334)
T 1in4_A          299 PYLLQAGFLARTPRGRIVTEK  319 (334)
T ss_dssp             HHHHHTTSEEEETTEEEECHH
T ss_pred             HHHHHcCCeecccccHHhhHH
Confidence             78899999998888865443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.50  E-value=6.7e-06  Score=79.78  Aligned_cols=172  Identities=17%  Similarity=0.242  Sum_probs=100.6

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      .++.|.+...++|.+.+..           +-..++-+.++|+||+|||.||+++++.....|    +..........  
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~sk--  221 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF----IRVSGAELVQK--  221 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE----EEEEGGGGSCS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc----eEEEhHHhhcc--
Confidence            6788999988888875431           223356689999999999999999999765543    33322221111  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhH-HHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGI-NMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                      .                   .......+ ..+...-...|++|++|+++..                ..+..++..+..+
T Consensus       222 ~-------------------vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  282 (405)
T 4b4t_J          222 Y-------------------IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGF  282 (405)
T ss_dssp             S-------------------TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTT
T ss_pred             c-------------------cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhcc
Confidence            0                   01111111 1222233467999999999532                1233333322211


Q ss_pred             --CCCcEEEEEcCCHh-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 --GPGSRIIITTRDEH-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 --~~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                        ..+..||.||..+.     +......+..+.++..+.++-.++|+.+..+.....+.   -...+++.+.|.-
T Consensus       283 ~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dv---dl~~lA~~t~G~S  354 (405)
T 4b4t_J          283 ETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI---NLRKVAEKMNGCS  354 (405)
T ss_dssp             TCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSC---CHHHHHHHCCSCC
T ss_pred             CCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccC---CHHHHHHHCCCCC
Confidence              33455666776443     22223456789999999999999998776443222111   1456777787753

>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=98.46  E-value=1.2e-05  Score=77.61  Aligned_cols=180  Identities=13%  Similarity=0.174  Sum_probs=103.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      ..++|.+..++.|...+..+  ..+.+.++|++|+||||+|+.++..+... +...+.-.+..   +..+. ..+ ...+
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~---~~~~~-~~i-r~~i   97 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS---DDRGI-DVV-RNQI   97 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT---SCCSH-HHH-HTHH
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCc---ccccH-HHH-HHHH
Confidence            56889999999999888854  22338999999999999999999876432 22112111111   11111 111 1111


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHh-hCCCcc
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLK-LHRVEE  297 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~~~~~  297 (483)
                      ..+......               +.+.+-++|+|+++.  .+....+...+......+.+|++|.... +.. ......
T Consensus        98 ~~~~~~~~~---------------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~  162 (340)
T 1sxj_C           98 KDFASTRQI---------------FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  162 (340)
T ss_dssp             HHHHHBCCS---------------SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHhhccc---------------CCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhce
Confidence            111100000               113467899999963  3333333332222245667777765442 111 112234


Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      .+.+.+++.++..+.+...+......  ...+..+.+++.++|.+--+.
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~~--i~~~~~~~i~~~s~G~~r~~~  209 (340)
T 1sxj_C          163 RFRFQPLPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDMRRVL  209 (340)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCHHHHH
T ss_pred             eEeccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            78999999999999888766322211  223567789999999987543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.46  E-value=1.1e-06  Score=88.58  Aligned_cols=146  Identities=14%  Similarity=0.133  Sum_probs=82.7

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +.+|||+.+++.+...+...  ...-+.|+|++|+|||++|+.+++.+...+      ...++..+..            
T Consensus       180 d~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~------------  245 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG------------  245 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC------------
Confidence            56999999999999998753  234568999999999999999999875432      1122222111            


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhH---Hhh-
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL---LKL-  292 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~---~~~-  292 (483)
                           ....+.   ...   .....+...-...+.+|++|  ...+....|.+.+.  ....++|.+|.....   ... 
T Consensus       246 -----~~~~g~---~e~---~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~  310 (468)
T 3pxg_A          246 -----TKYRGE---FED---RLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKD  310 (468)
T ss_dssp             ---------------CT---THHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTC
T ss_pred             -----ccccch---HHH---HHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcC
Confidence                 000000   001   11122222333567899999  33333344555443  234566665554331   111 


Q ss_pred             ---CCCcceEecCCCChHHHHHHHHHhh
Q 038919          293 ---HRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       293 ---~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                         ......+.+++++.++..+++....
T Consensus       311 ~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          311 AALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence               1123468999999999999998765

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.39  E-value=1.1e-05  Score=79.62  Aligned_cols=172  Identities=19%  Similarity=0.250  Sum_probs=99.8

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      .++.|.+...++|.+.+..           +-..++-|.++|++|+|||.||+++++.....    ++..+........ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~----~~~v~~s~l~sk~-  255 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN----FIFSPASGIVDKY-  255 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE----EEEEEGGGTCCSS-
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC----EEEEehhhhcccc-
Confidence            6788999988888775431           22335779999999999999999999976543    2333222221110 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhH-HHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCC-
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGI-NMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDW-  273 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~-  273 (483)
                                          .......+ ......-...+++|++|+++..                ..+..|+..+.. 
T Consensus       256 --------------------~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  315 (437)
T 4b4t_L          256 --------------------IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGF  315 (437)
T ss_dssp             --------------------SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSS
T ss_pred             --------------------chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcc
Confidence                                01111111 1222233468999999999532                112333322221 


Q ss_pred             -CCCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          274 -FGPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       274 -~~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       ...+..||.||..+..+.     ....+..+.++..+.++-.++|..+..+.....+.   -...+++.+.|.-
T Consensus       316 ~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~---dl~~lA~~t~G~s  387 (437)
T 4b4t_L          316 DNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF---DFEAAVKMSDGFN  387 (437)
T ss_dssp             SCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC---CHHHHHHTCCSCC
T ss_pred             cCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc---CHHHHHHhCCCCC
Confidence             134556777776553321     11244578899889998889998776443222111   1455677777753

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.39  E-value=1.5e-05  Score=78.33  Aligned_cols=172  Identities=17%  Similarity=0.242  Sum_probs=99.3

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+...++|.+.+..           +-..++-|.++|++|+|||.||+++++.....|    +..........  
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f----i~vs~s~L~sk--  282 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF----IRVIGSELVQK--  282 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCCC--
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe----EEEEhHHhhcc--
Confidence            4688999988888775321           223467799999999999999999999776542    33222221110  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhH-HHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGI-NMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                                         ........+ ..+...-...+++|++|+++..                ..+..++..+..+
T Consensus       283 -------------------~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  343 (467)
T 4b4t_H          283 -------------------YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGF  343 (467)
T ss_dssp             -------------------SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSS
T ss_pred             -------------------cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhcc
Confidence                               001111111 1222233467999999999532                1122222222111


Q ss_pred             --CCCcEEEEEcCCHh-----HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 --GPGSRIIITTRDEH-----LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 --~~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                        ..+..||.||..+.     +......+..+.++..+.++-.++|+.++.........   -...|++.|.|.-
T Consensus       344 ~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dv---dl~~LA~~T~GfS  415 (467)
T 4b4t_H          344 DPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGI---RWELISRLCPNST  415 (467)
T ss_dssp             CCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSC---CHHHHHHHCCSCC
T ss_pred             CCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCC---CHHHHHHHCCCCC
Confidence              23445566776443     22223456788999999999999998776443222111   1455677777753

>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=98.38  E-value=1.3e-06  Score=94.81  Aligned_cols=149  Identities=14%  Similarity=0.125  Sum_probs=83.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +++|||+.++..+...+...  ..+.+.|+|++|+|||+||+.+++.+....      ...++..+.......       
T Consensus       170 d~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g-------  240 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG-------  240 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             cccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhcc-------
Confidence            56899999999999988753  234578999999999999999999874421      223333322111000       


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH-------------HHHHHhcCCCCCCCCcEEE
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE-------------QLRRLAGKRDWFGPGSRII  281 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-------------~~~~l~~~~~~~~~~~~il  281 (483)
                                  .............+...+.  +++.+|+||+++...             .+..++.     ..+..+|
T Consensus       241 ------------~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~-----~~~i~~I  303 (854)
T 1qvr_A          241 ------------AKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-----RGELRLI  303 (854)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH-----TTCCCEE
T ss_pred             ------------CccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh-----CCCeEEE
Confidence                        0001112222222222232  368999999997542             1222222     1234455


Q ss_pred             EEcCCHhH-----Hh-hCCCcceEecCCCChHHHHHHHHHhh
Q 038919          282 ITTRDEHL-----LK-LHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       282 iTtR~~~~-----~~-~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      .+|.....     .. .......+.+++++.++..+++....
T Consensus       304 ~at~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          304 GATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             EEECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             EecCchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            55543322     01 11122458999999999999997543

>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=98.37  E-value=5.7e-06  Score=83.38  Aligned_cols=180  Identities=16%  Similarity=0.151  Sum_probs=101.7

Q ss_pred             HhhhchhHHHHHHHHHhhcC-----------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGAG-----------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..++|.+..++.|.+++...           ....+-+.|+|++|+|||+||+.+++....    .++..+.......  
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~----~fv~vn~~~l~~~--  277 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGPEIMSK--  277 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS----EEEEEEHHHHHTS--
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC----CEEEEEchHhhhh--
Confidence            46899999999998876431           233467999999999999999999886532    2333322211110  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCC--CCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDW--FGP  276 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~--~~~  276 (483)
                      .            .      ..........+.....+++.+|+||+++..             .....|+..+..  ...
T Consensus       278 ~------------~------g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~  339 (489)
T 3hu3_A          278 L------------A------GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (489)
T ss_dssp             C------------T------THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTS
T ss_pred             h------------c------chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCC
Confidence            0            0      001111222334444577899999999321             112222221111  133


Q ss_pred             CcEEEEEcCCHhH-----HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC-hHHHHHHH
Q 038919          277 GSRIIITTRDEHL-----LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL-PLALKVLG  349 (483)
Q Consensus       277 ~~~iliTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~la  349 (483)
                      +..||.||..+..     .........+.++..+.++-.+++..++.......+   .....++..+.|. +-.|..+.
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 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAALC  415 (489)
T ss_dssp             CEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTCCHHHHHHHH
T ss_pred             ceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCCcHHHHHHHH
Confidence            4566667765532     111234457899999999999999887643322211   1134566666664 54455443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.36  E-value=3.6e-07  Score=76.50  Aligned_cols=47  Identities=19%  Similarity=0.248  Sum_probs=36.3

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +++|+...++.+.+.+..-......|.|+|++|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999988775422233457899999999999999998854

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.34  E-value=1.1e-05  Score=74.53  Aligned_cols=179  Identities=15%  Similarity=0.127  Sum_probs=94.4

Q ss_pred             HhhhchhHHHHHHHHHhhc---C-------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA---G-------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.+.+.+..   .       ....+-+.|+|++|+||||||+.+++.....|    +..+.......  .
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~----~~i~~~~~~~~--~   85 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF----FTISGSDFVEM--F   85 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE----EEECSCSSTTS--C
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE----EEEeHHHHHHH--h
Confidence            5688988887777664321   0       11234588999999999999999998764322    22222111100  0


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCC--C
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDW--F  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~  274 (483)
                                  .      ..........+.......+.++++|+++..                ..+..++..+..  .
T Consensus        86 ------------~------~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (257)
T 1lv7_A           86 ------------V------GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (257)
T ss_dssp             ------------C------CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             ------------h------hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc
Confidence                        0      001111122233333456789999998321                122333221111  1


Q ss_pred             CCCcEEEEEcCCHhHH-hh----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCC-ChHHHHHH
Q 038919          275 GPGSRIIITTRDEHLL-KL----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGG-LPLALKVL  348 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~-~~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~l  348 (483)
                      ..+..||.||..+... ..    ......+.++..+.++-.+++..........++.   ....++..+.| ++--|..+
T Consensus       148 ~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~---~~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI---DAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccc---cHHHHHHHcCCCCHHHHHHH
Confidence            2345666677654321 11    1234567888888888888887765332211111   13345666777 66555443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.34  E-value=1.1e-05  Score=79.25  Aligned_cols=171  Identities=17%  Similarity=0.184  Sum_probs=92.9

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc-cC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD-KE  210 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~  210 (483)
                      .++.|.+...++|.+.+..           +-..++-+.++|++|+|||.||+++++.....    ++..+...... ..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~----~~~v~~~~l~~~~~  247 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA----FIRVNGSEFVHKYL  247 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE----EEEEEGGGTCCSSC
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC----eEEEecchhhcccc
Confidence            6788999988888775431           22345679999999999999999999976543    23332222111 11


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCC-
Q 038919          211 GSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDW-  273 (483)
Q Consensus       211 ~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~-  273 (483)
                      +-...                     .....+...-...+++|++|+++..                ..+..|+..+.. 
T Consensus       248 Ge~e~---------------------~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~  306 (428)
T 4b4t_K          248 GEGPR---------------------MVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGF  306 (428)
T ss_dssp             SHHHH---------------------HHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHS
T ss_pred             chhHH---------------------HHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCC
Confidence            11011                     1111222233467899999998421                112333322211 


Q ss_pred             -CCCCcEEEEEcCCHh-----HHhhCCCcceEecCCCC-hHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          274 -FGPGSRIIITTRDEH-----LLKLHRVEEVFKLEALT-YDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       274 -~~~~~~iliTtR~~~-----~~~~~~~~~~~~l~~L~-~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                       ...+..||.||..+.     +......+..+.++.+. .++-.++|..+..+.....+.   -...+++.+.|.
T Consensus       307 ~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~---dl~~lA~~t~G~  378 (428)
T 4b4t_K          307 DQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA---DLDSLIIRNDSL  378 (428)
T ss_dssp             CSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC---CHHHHHHHTTTC
T ss_pred             CCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc---CHHHHHHHCCCC
Confidence             134556666776443     22222344567887664 455556666555332211111   145667777775

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.34  E-value=1.2e-05  Score=79.19  Aligned_cols=170  Identities=14%  Similarity=0.169  Sum_probs=98.2

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc-cC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD-KE  210 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~  210 (483)
                      ..+.|.+...++|.+.+..           +-..++-|.++|+||+|||.||+++++.....    ++..+...... ..
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 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT----FLKLAAPQLVQMYI  256 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE----EEEEEGGGGCSSCS
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC----EEEEehhhhhhccc
Confidence            6789999988888775321           22335779999999999999999999976543    33332222211 11


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHH-HHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCC
Q 038919          211 GSVISLQKQLISDLLKLADNSIRNVYDGINM-IGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDW  273 (483)
Q Consensus       211 ~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~  273 (483)
                      +.                      ....+.. +...-...|++|++|+++..                ..+..++..+..
T Consensus       257 Ge----------------------se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg  314 (434)
T 4b4t_M          257 GE----------------------GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDG  314 (434)
T ss_dssp             SH----------------------HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTT
T ss_pred             ch----------------------HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhc
Confidence            11                      1111111 22223467999999999432                112233333332


Q ss_pred             C--CCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          274 F--GPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       274 ~--~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                      +  ..+..||.||..+..+.     ....+..+.++..+.++-.++|+.+........+.   -...+++.+.|.
T Consensus       315 ~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dv---dl~~lA~~t~G~  386 (434)
T 4b4t_M          315 FSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDI---NWQELARSTDEF  386 (434)
T ss_dssp             SCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCC---CHHHHHHHCSSC
T ss_pred             cCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcC---CHHHHHHhCCCC
Confidence            2  23455666776553321     12344678899999998899987766433221111   145567777765

>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=98.31  E-value=1.2e-05  Score=76.14  Aligned_cols=49  Identities=20%  Similarity=0.282  Sum_probs=38.5

Q ss_pred             HhhhchhHHHHHHHHHhhc------------CCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGA------------GCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~------------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +.++|.+..++.+...+..            .......+.|+|++|+|||++|+.+++...
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            5689999988888876653            011245688999999999999999998774

>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=98.27  E-value=8.3e-06  Score=87.52  Aligned_cols=152  Identities=16%  Similarity=0.169  Sum_probs=89.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc------cceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE------FDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +.++||+.+++.+.+.|...  ...-+.|+|++|+|||++|+.+++.+...      ....++..+......        
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            57899999999999988754  33567899999999999999999876432      122233322211100        


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh-cCceEEEEcCCCCH----------HHH-HHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR-QKKVLLVIDDVAHV----------EQL-RRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~----------~~~-~~l~~~~~~~~~~~~iliTt  284 (483)
                                 ..............+...+. .++.+|++|+++..          ... ..+.+.+.  .....+|.+|
T Consensus       256 -----------~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at  322 (758)
T 1r6b_X          256 -----------GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  322 (758)
T ss_dssp             -----------CCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEE
T ss_pred             -----------cccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEe
Confidence                       00111222222333333333 35789999999743          222 33334333  3445666666


Q ss_pred             CCHhHHhh-------CCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLLKL-------HRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~~~-------~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+.....       ......+.+++++.++..+++....
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            54332111       1122368899999999999887654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.24  E-value=2.8e-05  Score=75.75  Aligned_cols=171  Identities=17%  Similarity=0.218  Sum_probs=97.6

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      .++.|.+...++|.+.+..           +-..++-|.++|++|+|||.||+++++.....|    +..+.......  
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f----i~v~~s~l~sk--  255 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF----LRIVGSELIQK--  255 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE----EEEESGGGCCS--
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE----EEEEHHHhhhc--
Confidence            6788999988888775421           223356799999999999999999999766542    33322221111  


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHH-HHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINM-IGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                                         ........+.. +...-...+++|++|+++..                ..+..++..+..+
T Consensus       256 -------------------~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~  316 (437)
T 4b4t_I          256 -------------------YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF  316 (437)
T ss_dssp             -------------------SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC
T ss_pred             -------------------cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc
Confidence                               01111111221 22223467899999998521                1222333222111


Q ss_pred             --CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCC
Q 038919          275 --GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGL  341 (483)
Q Consensus       275 --~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  341 (483)
                        ..+..||.||..+..+..     ...+..+.++..+.++-.++|..+........+.   ....+++.+.|.
T Consensus       317 ~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv---dl~~LA~~T~Gf  387 (437)
T 4b4t_I          317 DDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV---NLETLVTTKDDL  387 (437)
T ss_dssp             CCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC---CHHHHHHHCCSC
T ss_pred             CCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC---CHHHHHHhCCCC
Confidence              234556667765543221     1234568889889998899998776443222111   145566777765

>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=98.23  E-value=2.9e-05  Score=77.69  Aligned_cols=173  Identities=17%  Similarity=0.205  Sum_probs=97.7

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+..++++.+....          +..-++-+.|+|++|+|||+||+.++......    ++..+.......  .
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~----f~~is~~~~~~~--~   89 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP----FFHISGSDFVEL--F   89 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC----EEEEEGGGTTTC--C
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC----eeeCCHHHHHHH--H
Confidence            5688888877777665431          11113458899999999999999999876433    222222221111  0


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC--
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF--  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--  274 (483)
                       ..                 .........+.....+.+.+|+||+++..                ..+..++..+..+  
T Consensus        90 -~g-----------------~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~  151 (476)
T 2ce7_A           90 -VG-----------------VGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS  151 (476)
T ss_dssp             -TT-----------------HHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG
T ss_pred             -hc-----------------ccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC
Confidence             00                 00111222334444568999999999532                1233343222111  


Q ss_pred             CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      ..+..||.||..+..+..     ......+.+++.+.++-.+++..++.......+.   ....++..+.|+.
T Consensus       152 ~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v---~l~~la~~t~G~s  221 (476)
T 2ce7_A          152 KEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV---NLEIIAKRTPGFV  221 (476)
T ss_dssp             GGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             CCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh---hHHHHHHhcCCCc
Confidence            235567777776543221     1234578899999888888887766433222111   1345777888887

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.17  E-value=2e-05  Score=74.81  Aligned_cols=51  Identities=20%  Similarity=0.269  Sum_probs=39.3

Q ss_pred             HhhhchhHHHHHHHHHhhcC------C-CCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGAG------C-NDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~------~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++|.+..++.+...+...      . .....+.|+|++|+|||++|+.++......
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~   74 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT   74 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC
Confidence            46789988888888766542      1 113579999999999999999999977543

>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=98.16  E-value=5.7e-06  Score=71.83  Aligned_cols=44  Identities=20%  Similarity=0.225  Sum_probs=31.2

Q ss_pred             hhHHHHHHHHHhhcCC-CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          148 IESRLEKLKFLMGAGC-NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ....++.+.+++..-. .....+.|+|++|+|||||++.++..+.
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3344455555554311 2246899999999999999999999875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.16  E-value=9.3e-06  Score=87.02  Aligned_cols=146  Identities=14%  Similarity=0.137  Sum_probs=83.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc------ceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF------DGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +.+|||+.+++.+...+...  ...-+.|+|++|+|||++|+.+++.+....      ...++..+.             
T Consensus       180 d~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-------------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-------------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-------------
Confidence            56999999999999998753  234578999999999999999999874321      112222111             


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhH---Hhh-
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL---LKL-  292 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~---~~~-  292 (483)
                          .....   +....   .....+......++.+|++|  ...+....+.+.+.  ....++|.||.....   ... 
T Consensus       245 ----g~~~~---G~~e~---~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d  310 (758)
T 3pxi_A          245 ----GTKYR---GEFED---RLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKD  310 (758)
T ss_dssp             ---------------CT---THHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTC
T ss_pred             ----ccccc---chHHH---HHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhcc
Confidence                00000   00011   11222333334678899999  33333344555544  334566666654431   000 


Q ss_pred             ---CCCcceEecCCCChHHHHHHHHHhh
Q 038919          293 ---HRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       293 ---~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                         ......+.+++++.++..+++....
T Consensus       311 ~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          311 AALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence               0122568999999999999998654

>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=98.16  E-value=1.2e-05  Score=76.04  Aligned_cols=146  Identities=15%  Similarity=0.054  Sum_probs=86.0

Q ss_pred             chhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh---cccceeEEEEecccccccCCcHHHHHHHHHHH
Q 038919          147 GIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS---HEFDGSSFLADVKEKYDKEGSVISLQKQLISD  223 (483)
Q Consensus       147 GR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~---~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~  223 (483)
                      |-++.++.|.+.+..+.  .+...++|++|+||||+|..+++...   ..++....+. ...  ...+  ....+++...
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-PEG--ENIG--IDDIRTIKDF   73 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC-CSS--SCBC--HHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc-CCc--CCCC--HHHHHHHHHH
Confidence            34556777888887554  67999999999999999999987531   1122222221 110  0111  1222223332


Q ss_pred             HhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCH-hHHhhCCCcceEe
Q 038919          224 LLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDE-HLLKLHRVEEVFK  300 (483)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~~~~~~~~~~  300 (483)
                      .....                 ..+++-++|+|+++.  .+..+.|+..+....+.+.+|++|.++ .+.+..... .++
T Consensus        74 ~~~~p-----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           74 LNYSP-----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HTSCC-----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             Hhhcc-----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            21100                 023456899999964  445555554444335677777776554 333333333 899


Q ss_pred             cCCCChHHHHHHHHHhh
Q 038919          301 LEALTYDEAFQLFCLKA  317 (483)
Q Consensus       301 l~~L~~~ea~~L~~~~~  317 (483)
                      +.+++.++..+.+...+
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

>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=98.08  E-value=5.7e-05  Score=75.79  Aligned_cols=49  Identities=27%  Similarity=0.258  Sum_probs=38.1

Q ss_pred             HhhhchhHHHHHHHHHh---hcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLM---GAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L---~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|.+...+.+..++   ..+....+-+.++|++|+|||+||+.+++.+.
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            67999998877665544   33333346789999999999999999998764

>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=98.03  E-value=1.5e-05  Score=73.92  Aligned_cols=49  Identities=20%  Similarity=0.129  Sum_probs=35.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|.+..+..+.+.+.........+.|+|++|+|||+||+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4689999988888776653222235688999999999999999998654

>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=98.02  E-value=2.1e-06  Score=79.87  Aligned_cols=152  Identities=18%  Similarity=0.261  Sum_probs=82.9

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      ..++|.+...+.+.+.+..          +....+-+.|+|++|+|||+||+.+++.....|-    ..+.......   
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~----~v~~~~~~~~---   83 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFF----SMGGSSFIEM---   83 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCC----CCCSCTTTTS---
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEE----EechHHHHHh---
Confidence            4688888877777765541          1112234789999999999999999997654321    1111110000   


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCHH-----------------HHHHHhcCCCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVE-----------------QLRRLAGKRDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-----------------~~~~l~~~~~~~~  275 (483)
                                 ..+..   ......   .+.......+.+|+||+++...                 .+..++..+....
T Consensus        84 -----------~~~~~---~~~~~~---~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (268)
T 2r62_A           84 -----------FVGLG---ASRVRD---LFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG  146 (268)
T ss_dssp             -----------CSSSC---SSSSST---THHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS
T ss_pred             -----------hcchH---HHHHHH---HHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc
Confidence                       00111   111111   1222334567899999996431                 1222333332211


Q ss_pred             ---CCcEEEEEcCCHhHH-----hhCCCcceEecCCCChHHHHHHHHHhhc
Q 038919          276 ---PGSRIIITTRDEHLL-----KLHRVEEVFKLEALTYDEAFQLFCLKAF  318 (483)
Q Consensus       276 ---~~~~iliTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~  318 (483)
                         ....||.||..+..+     ........+.+++.+.++-.+++...+.
T Consensus       147 ~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~  197 (268)
T 2r62_A          147 SENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIK  197 (268)
T ss_dssp             CSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTS
T ss_pred             cCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHh
Confidence               224566677654321     1112335678888999988888877653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.02  E-value=2.8e-05  Score=73.56  Aligned_cols=47  Identities=19%  Similarity=0.227  Sum_probs=37.5

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|+...+..+.+.+.........|.|+|++|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            57899999988888776422234568899999999999999999854

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.99  E-value=1.4e-06  Score=72.75  Aligned_cols=48  Identities=15%  Similarity=0.119  Sum_probs=34.4

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++|++..++++.+.+.........|.|+|++|+|||++|+.+++...
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            578999988888887654112224588999999999999999887543

>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=97.94  E-value=5.6e-05  Score=80.07  Aligned_cols=172  Identities=15%  Similarity=0.165  Sum_probs=98.1

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+..+++|.+.+..           +-..++-|.++|++|+|||+||+++++.....    ++..+......   
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~----~~~v~~~~l~s---  276 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMS---  276 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE----EEEEEHHHHHS---
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe----EEEEEhHHhhc---
Confidence            5688998888888775431           11235679999999999999999999866443    33332211110   


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhh-hHHHHHHHHhcCceEEEEcCCCCH-------------HHHHHHhcCCCCC--C
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYD-GINMIGRRLRQKKVLLVIDDVAHV-------------EQLRRLAGKRDWF--G  275 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~-~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~--~  275 (483)
                                     .   ....... ....+.......+++|+||+++..             ..+..|+..+...  .
T Consensus       277 ---------------k---~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~  338 (806)
T 3cf2_A          277 ---------------K---LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR  338 (806)
T ss_dssp             ---------------S---CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGG
T ss_pred             ---------------c---cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhccccc
Confidence                           0   0111111 222233334578999999999532             1223333222111  2


Q ss_pred             CCcEEEEEcCCHhHHh-h----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          276 PGSRIIITTRDEHLLK-L----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~-~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .+..||.||..+..+. .    ......++++..+.++-.++|+.+..+.....+   .....++..+.|.-
T Consensus       339 ~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~d---vdl~~lA~~T~Gfs  407 (806)
T 3cf2_A          339 AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHV  407 (806)
T ss_dssp             GCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTT---CCHHHHHHHCCSCC
T ss_pred             CCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcc---cCHHHHHHhcCCCC
Confidence            3444555665443221 1    134567899999999999999877643321111   11456777787764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.91  E-value=3.8e-05  Score=82.29  Aligned_cols=148  Identities=15%  Similarity=0.201  Sum_probs=84.6

Q ss_pred             HhhhchhHHHHHHHHHhhcCC-------CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGC-------NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVIS  215 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~-------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  215 (483)
                      ..++|.+..++.+...+....       .....+.++|++|+|||++|+.+++.....-.. +...++......... . 
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~-~i~i~~s~~~~~~~~-~-  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEES-MIRIDMSEYMEKHST-S-  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTC-EEEEEGGGGCSSCCC-C-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcc-eEEEechhccccccc-c-
Confidence            568999999988887765311       112379999999999999999999987433222 333344433332221 0 


Q ss_pred             HHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCC-----------CCCCcEEEE
Q 038919          216 LQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDW-----------FGPGSRIII  282 (483)
Q Consensus       216 l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~-----------~~~~~~ili  282 (483)
                                         .......++   .....+|+||+++.  .+....|+..+..           ...+..||+
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   23445999999963  3333333322211           123567888


Q ss_pred             EcCC-----------------HhHHhhCCCcceEecCCCChHHHHHHHHHhh
Q 038919          283 TTRD-----------------EHLLKLHRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       283 TtR~-----------------~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ||..                 +.+..  ..+.++.+++|+.++-.+++...+
T Consensus       626 ttn~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          626 TSNVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             EESSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHH
T ss_pred             eCCCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHH
Confidence            8872                 11111  233578999999999888886654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.87  E-value=6.9e-05  Score=70.43  Aligned_cols=29  Identities=28%  Similarity=0.554  Sum_probs=24.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .++.+.|+|++|+|||+||+.+++.....
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            35688999999999999999999987443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.86  E-value=1.8e-05  Score=66.35  Aligned_cols=27  Identities=26%  Similarity=0.416  Sum_probs=24.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...++|+|++|+|||||++.++.....
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999999987764

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.81  E-value=0.00031  Score=64.41  Aligned_cols=172  Identities=19%  Similarity=0.188  Sum_probs=85.6

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.+....++.++...          +-.-.+-+.|+|++|+|||||++.++......   .+.+. ..        
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~---~i~~~-~~--------   83 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GS--------   83 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEE-HH--------
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC---EEEee-HH--------
Confidence            4577777665555543221          00111238999999999999999999876421   12221 11        


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH----------------HHHHHHhcCCCCC-
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF-  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~-  274 (483)
                        .+..    .       ........+..+.+.. ...+.++++||++..                ..+..++..+... 
T Consensus        84 --~~~~----~-------~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~  150 (254)
T 1ixz_A           84 --DFVE----M-------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  150 (254)
T ss_dssp             --HHHH----S-------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             --HHHH----H-------HhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCC
Confidence              1000    0       0000111122222222 245789999999422                1122332221111 


Q ss_pred             -CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 -GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 -~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       .....++.||..+..+..     ......+.++..+.++-.+++...+.......+.   ....+++.+.|+-
T Consensus       151 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~---~~~~la~~~~G~~  221 (254)
T 1ixz_A          151 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV---DLALLAKRTPGFV  221 (254)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             CCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCccc---CHHHHHHHcCCCC
Confidence             122334456665544321     1344578899999988888887665322211111   1334566666654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.79  E-value=0.00012  Score=64.65  Aligned_cols=50  Identities=14%  Similarity=0.119  Sum_probs=34.3

Q ss_pred             HHHHHHHHhhcCCCC--cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          151 RLEKLKFLMGAGCND--VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~--~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .++.+.+++......  .+.+.|+|++|+|||+||+.+++.........+++
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~   88 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIV   88 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            444555555533221  26889999999999999999999876554444444

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.74  E-value=0.001  Score=61.76  Aligned_cols=172  Identities=19%  Similarity=0.196  Sum_probs=88.0

Q ss_pred             HhhhchhHHHHHHHHHhhc----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.+...+++.++...          +-.-.+-+.|+|++|+|||||++.++......   .+.+. ..        
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~---~i~~~-~~--------  107 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GS--------  107 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEE-HH--------
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCC---EEEec-HH--------
Confidence            5688888776666554321          00111238999999999999999999876421   22222 11        


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHH-HhcCceEEEEcCCCCH----------------HHHHHHhcCCCCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRR-LRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWFG  275 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~~  275 (483)
                        .+..    . .      .......+..+.+. ....+.++++||++..                ..+..++..+....
T Consensus       108 --~~~~----~-~------~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~  174 (278)
T 1iy2_A          108 --DFVE----M-F------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  174 (278)
T ss_dssp             --HHHH----S-T------TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCC
T ss_pred             --HHHH----H-H------hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCC
Confidence              1100    0 0      00011111122222 2346789999999421                11223332222111


Q ss_pred             -C-CcEEEEEcCCHhHH-----hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          276 -P-GSRIIITTRDEHLL-----KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       276 -~-~~~iliTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       . ...++.||..+..+     ........+.++..+.++-.+++..++.......+.   ....++..+.|+.
T Consensus       175 ~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~---~~~~la~~~~G~~  245 (278)
T 1iy2_A          175 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV---DLALLAKRTPGFV  245 (278)
T ss_dssp             TTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             CCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCccc---CHHHHHHHcCCCC
Confidence             1 23344456554332     212345678899999998888887665332211111   1344666666655

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.71  E-value=0.0001  Score=79.08  Aligned_cols=48  Identities=19%  Similarity=0.205  Sum_probs=38.0

Q ss_pred             HhhhchhHHHHHHHHHhhcC-------CCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAG-------CNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|.+..++.+...+...       ......+.++|++|+|||++|+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            56889999988887766431       1123479999999999999999999977

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.70  E-value=0.00027  Score=71.07  Aligned_cols=169  Identities=19%  Similarity=0.214  Sum_probs=91.9

Q ss_pred             HhhhchhHHHHHHHHHhhc---C-------CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMGA---G-------CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.+....++.+....   .       -.-.+-+.|+|++|+|||+||+.++.....    .++..+.......  .
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~----~~i~i~g~~~~~~--~  104 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV----PFITASGSDFVEM--F  104 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTC----CEEEEEGGGGTSS--C
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC----CEEEEehhHHHHh--h
Confidence            4688888877776664321   0       011234899999999999999999987642    2233322221110  0


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh----cCceEEEEcCCCCH----------------HHHHHHhcCCC
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR----QKKVLLVIDDVAHV----------------EQLRRLAGKRD  272 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~----~~~~LlVlDdv~~~----------------~~~~~l~~~~~  272 (483)
                       ..                     .....+...+.    ..+.++++|+++..                ..+..++..+.
T Consensus       105 -~g---------------------~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ld  162 (499)
T 2dhr_A          105 -VG---------------------VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  162 (499)
T ss_dssp             -TT---------------------HHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGG
T ss_pred             -hh---------------------hHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhc
Confidence             00                     00111112221    24689999999421                22334433222


Q ss_pred             CC--CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          273 WF--GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       273 ~~--~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      .+  .....++.||..+..+..     ......+.++..+.++-.+++..++.......+.   ....++..+.|+.
T Consensus       163 g~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv---~l~~lA~~t~G~~  236 (499)
T 2dhr_A          163 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV---DLALLAKRTPGFV  236 (499)
T ss_dssp             GCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSS---TTHHHHTTSCSCC
T ss_pred             ccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHH---HHHHHHHhcCCCC
Confidence            11  223455566666644321     1234578899999998889988776332222111   1345677777776

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.70  E-value=0.0018  Score=60.00  Aligned_cols=124  Identities=14%  Similarity=0.114  Sum_probs=67.7

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH-Hh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR-LR  247 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~-l~  247 (483)
                      ++|+|++|+|||||++.++.....   ..+.+. ....... .. ..                   ....+..+.+. ..
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~---~~i~i~-g~~l~~~-~~-~~-------------------~~~~i~~vf~~a~~  101 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGL---NFISVK-GPELLNM-YV-GE-------------------SERAVRQVFQRAKN  101 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTC---EEEEEE-TTTTCSS-TT-HH-------------------HHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCC---CEEEEE-cHHHHhh-hh-hH-------------------HHHHHHHHHHHHHh
Confidence            999999999999999999986543   122222 1111110 00 00                   01111122222 23


Q ss_pred             cCceEEEEcCCCCH-------------HHHHHHhcCCCCC--CCCcEEEEEcCCHhHHh-----hCCCcceEecCCCChH
Q 038919          248 QKKVLLVIDDVAHV-------------EQLRRLAGKRDWF--GPGSRIIITTRDEHLLK-----LHRVEEVFKLEALTYD  307 (483)
Q Consensus       248 ~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~--~~~~~iliTtR~~~~~~-----~~~~~~~~~l~~L~~~  307 (483)
                      ..+.++++|+++..             .....++..+...  .....++.+|..+..+.     ....+..+.++..+.+
T Consensus       102 ~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~  181 (274)
T 2x8a_A          102 SAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPA  181 (274)
T ss_dssp             TCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHH
T ss_pred             cCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHH
Confidence            56789999999642             0111222111100  12334555666654432     1245567889999999


Q ss_pred             HHHHHHHHhh
Q 038919          308 EAFQLFCLKA  317 (483)
Q Consensus       308 ea~~L~~~~~  317 (483)
                      +-.+++....
T Consensus       182 ~r~~il~~~~  191 (274)
T 2x8a_A          182 DRLAILKTIT  191 (274)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9999998766

>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=97.69  E-value=0.00022  Score=69.61  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=22.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+.|+|++|+|||++|+.+++.+.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            35689999999999999999998763

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.58  E-value=0.00047  Score=70.56  Aligned_cols=52  Identities=21%  Similarity=0.286  Sum_probs=37.7

Q ss_pred             HHhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          142 LKELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ....+|.+...+.+.+.+..    .......+.|+|++|+||||||+.++......
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~  135 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK  135 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            36688888777666553321    11235689999999999999999999877543

>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=97.37  E-value=0.0012  Score=71.50  Aligned_cols=50  Identities=20%  Similarity=0.284  Sum_probs=38.7

Q ss_pred             HhhhchhHHHHHHHHHhhcC-------CCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          143 KELVGIESRLEKLKFLMGAG-------CNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|.+..++.+...+...       ......+.|+|++|+|||++|+.+++....
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~  614 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD  614 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            45789999888888766531       111357999999999999999999987743

>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=97.26  E-value=0.0013  Score=58.52  Aligned_cols=34  Identities=32%  Similarity=0.311  Sum_probs=25.6

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |...+..+-....++.|.|++|+|||||+..++.
T Consensus         9 LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A            9 LDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             HHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4444432223346899999999999999999988

>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=97.22  E-value=0.00092  Score=64.10  Aligned_cols=101  Identities=23%  Similarity=0.247  Sum_probs=54.5

Q ss_pred             HHHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCC
Q 038919          153 EKLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNS  231 (483)
Q Consensus       153 ~~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~  231 (483)
                      ..|...|. .+-....++.|+|++|+|||||+.+++......-..++|+. .....   .  ....+.+.-..-......
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId-~E~s~---~--~~ra~rlgv~~~~l~i~~  120 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID-AEHAL---D--PVYAKNLGVDLKSLLISQ  120 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSCCC---C--HHHHHHHTCCGGGCEEEC
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe-ccccc---c--hHHHHHcCCchhhhhhhh
Confidence            34555555 33234579999999999999999999987765433445553 22111   1  111121100000000111


Q ss_pred             ccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          232 IRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       232 ~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      ..+..+....+...++ .+.-++|+|.+.
T Consensus       121 ~~~~e~~l~~~~~l~~~~~~dlvVIDSi~  149 (356)
T 3hr8_A          121 PDHGEQALEIVDELVRSGVVDLIVVDSVA  149 (356)
T ss_dssp             CSSHHHHHHHHHHHHHTSCCSEEEEECTT
T ss_pred             ccCHHHHHHHHHHHhhhcCCCeEEehHhh
Confidence            2344455555555444 456799999873

>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=97.19  E-value=0.00069  Score=63.47  Aligned_cols=71  Identities=20%  Similarity=0.221  Sum_probs=43.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+++.|+|++|+|||+||.+++..  ... .+.|+. ... ......                  ...+.......+.+.
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~--~G~-~VlyIs-~~~-eE~v~~------------------~~~~le~~l~~i~~~  179 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA--LGG-KDKYAT-VRF-GEPLSG------------------YNTDFNVFVDDIARA  179 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH--HHT-TSCCEE-EEB-SCSSTT------------------CBCCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh--CCC-CEEEEE-ecc-hhhhhh------------------hhcCHHHHHHHHHHH
Confidence            367889999999999999999886  111 223443 200 000000                  003344455556666


Q ss_pred             HhcCceEEEEcCCCC
Q 038919          246 LRQKKVLLVIDDVAH  260 (483)
Q Consensus       246 l~~~~~LlVlDdv~~  260 (483)
                      +.+.+ +||+|++..
T Consensus       180 l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          180 MLQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHHCS-EEEEECCTT
T ss_pred             HhhCC-EEEEecccc
Confidence            66666 999999954

>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=97.15  E-value=0.00072  Score=71.65  Aligned_cols=152  Identities=14%  Similarity=0.193  Sum_probs=79.0

Q ss_pred             HhhhchhHHHHHHHHHhhc-----------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLMGA-----------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..+.|.+...++|.+.+..           +....+-+.++|++|+|||.||+++++.....    ++....        
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~----f~~v~~--------  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKG--------  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE----EEECCH--------
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc----eEEecc--------
Confidence            4567888777777765432           11224558899999999999999999976543    222111        


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH----------------HHHHHHhcCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF  274 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~  274 (483)
                        .    .++....       ...+..+..+.+.. ...+++|+||+++..                ..+..|+..+...
T Consensus       545 --~----~l~s~~v-------Gese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~  611 (806)
T 3cf2_A          545 --P----ELLTMWF-------GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM  611 (806)
T ss_dssp             --H----HHHTTTC-------SSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSS
T ss_pred             --c----hhhcccc-------chHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCC
Confidence              1    1111111       11122233333333 467999999999532                0133333322211


Q ss_pred             C--CCcEEEEEcCCH-----hHHhhCCCcceEecCCCChHHHHHHHHHhhcc
Q 038919          275 G--PGSRIIITTRDE-----HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFE  319 (483)
Q Consensus       275 ~--~~~~iliTtR~~-----~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~  319 (483)
                      .  .+.-||-||..+     .++.....+..+.++..+.++-.++|+.+..+
T Consensus       612 ~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~  663 (806)
T 3cf2_A          612 STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK  663 (806)
T ss_dssp             CSSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSC
T ss_pred             CCCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcC
Confidence            2  233333355433     22222245667888888888888888776643

>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=97.05  E-value=0.0012  Score=63.41  Aligned_cols=110  Identities=15%  Similarity=0.178  Sum_probs=65.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEE-EEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF-LADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~-~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+++|+|+.|+|||||.+.++..+.......++ +.+..+.......          ....... ...........+...
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            599999999999999999998876554333332 2211111000000          0000000 011112344578888


Q ss_pred             HhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHH
Q 038919          246 LRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLL  290 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~  290 (483)
                      ++..|=+|++|...+.+..+.+....   ..|..||+|+......
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            89999999999999887766654432   2466688888866543

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.04  E-value=0.001  Score=59.70  Aligned_cols=27  Identities=26%  Similarity=0.393  Sum_probs=23.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|++|+|||||++.++....
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            357999999999999999999987543

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.99  E-value=0.0027  Score=56.56  Aligned_cols=35  Identities=14%  Similarity=-0.229  Sum_probs=27.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..++.|+|++|+||||++..++++...+...+.++
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~   46 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVF   46 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            47899999999999999999999886654333433

>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=96.98  E-value=0.0015  Score=61.02  Aligned_cols=34  Identities=9%  Similarity=0.074  Sum_probs=26.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEE
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLA  201 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~  201 (483)
                      ++.|+|++|+|||||+.+++......+  ..++|+.
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            789999999999999999988776542  2344443

>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=96.96  E-value=0.0014  Score=56.73  Aligned_cols=116  Identities=18%  Similarity=0.101  Sum_probs=58.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhccc-CC--Cc-------cchh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLA-DN--SI-------RNVY  236 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~-~~--~~-------~~~~  236 (483)
                      ..|.|++..|.||||+|...+-+...+-..+.++.-+... ...+. ..++..+.-.+.... ..  ..       ....
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~~~gE-~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-WPNGE-RNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-SCCHH-HHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-CCccH-HHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            4566666677999999999988776554444554322211 11111 222222200000000 00  00       0112


Q ss_pred             hhHHHHHHHHhcC-ceEEEEcCCC--------CHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          237 DGINMIGRRLRQK-KVLLVIDDVA--------HVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       237 ~~~~~l~~~l~~~-~~LlVlDdv~--------~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      ......++.+.+. -=|||||++.        +.+.+-.++...   .....||+|+|+.
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~R---p~~~~vIlTGr~a  163 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNAR---PGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTS---CTTCEEEEECSSC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhC---cCCCEEEEECCCC
Confidence            2233444444443 4599999983        334444444332   4678899999975

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.96  E-value=0.0013  Score=59.08  Aligned_cols=27  Identities=22%  Similarity=0.111  Sum_probs=23.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+++|.|++|+|||||+..++.....
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~   49 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLR   49 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999976554

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.95  E-value=0.001  Score=60.18  Aligned_cols=37  Identities=19%  Similarity=0.240  Sum_probs=27.1

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|..+|..+-....++.|.|++|+|||||+..++...
T Consensus        12 ~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           12 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            3444443222234699999999999999999999853

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.92  E-value=0.0028  Score=58.21  Aligned_cols=111  Identities=13%  Similarity=0.135  Sum_probs=63.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      ..+++|+|+.|+|||||++.++..+...+.+.+++....-..-.... .        .+........ +.......+...
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~-~--------~~v~q~~~gl-~~~~l~~~la~a   94 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHK-K--------SIVNQREVGE-DTKSFADALRAA   94 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCS-S--------SEEEEEEBTT-TBSCHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCc-c--------eeeeHHHhCC-CHHHHHHHHHHH
Confidence            47999999999999999999988765443444544321100000000 0        0000000000 012234566777


Q ss_pred             HhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhH
Q 038919          246 LRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHL  289 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~  289 (483)
                      +...+=+|++|...+.+....++...   ..|..|++||.+...
T Consensus        95 L~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           95 LREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HHHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSH
T ss_pred             HhhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcchH
Confidence            77788899999998776655544322   246668888876543

>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=96.83  E-value=0.0094  Score=50.55  Aligned_cols=20  Identities=40%  Similarity=0.669  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCCChhHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVV  186 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~  186 (483)
                      .+|+|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.82  E-value=0.0024  Score=61.33  Aligned_cols=48  Identities=27%  Similarity=0.310  Sum_probs=33.2

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|..+|. .+-....++.|+|++|+||||||.+++......-..++|+.
T Consensus        48 ~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           48 SLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3444554 22233578999999999999999999987655433445554

>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=96.80  E-value=0.0072  Score=57.89  Aligned_cols=38  Identities=21%  Similarity=0.332  Sum_probs=28.7

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|..+|..+-....++.|+|++|+|||+||.+++....
T Consensus       110 ~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~  147 (343)
T 1v5w_A          110 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ  147 (343)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             hHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45555543333467999999999999999999998643

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.75  E-value=0.0026  Score=55.87  Aligned_cols=45  Identities=27%  Similarity=0.303  Sum_probs=34.2

Q ss_pred             hhHHHHHHHHHhhc-CCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          148 IESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       148 R~~~l~~l~~~L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      |+..++.+.+.+.. ......+++|.|++|+|||||++.+...+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            55666777766553 2334689999999999999999999887643

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.75  E-value=0.0031  Score=60.60  Aligned_cols=48  Identities=29%  Similarity=0.396  Sum_probs=33.2

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .|..+|. .+-....++.|+|.+|+||||||.+++......-..++|+.
T Consensus        50 ~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           50 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            3444454 22223578999999999999999999987665434455554

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.74  E-value=0.017  Score=54.54  Aligned_cols=37  Identities=19%  Similarity=0.095  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...++.|.|.+|+||||||.+++......-..++|+.
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            3479999999999999999999977654434455543

>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=96.73  E-value=0.049  Score=52.00  Aligned_cols=156  Identities=10%  Similarity=-0.026  Sum_probs=93.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh-cccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS-HEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      -.++..++|+.|.||++.+..+...+. ..|.....+. ..   ..... ..+...+-.                     
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~---~~~~~-~~l~~~~~~---------------------   70 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS-ID---PNTDW-NAIFSLCQA---------------------   70 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE-CC---TTCCH-HHHHHHHHH---------------------
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE-ec---CCCCH-HHHHHHhcC---------------------
Confidence            357999999999999999999988764 2333211111 11   11111 222222110                     


Q ss_pred             HHHhcCceEEEEcCCCC-H--HHHHHHhcCCCCCCCCcEEEEEcCC-------HhHHhh-CCCcceEecCCCChHHHHHH
Q 038919          244 RRLRQKKVLLVIDDVAH-V--EQLRRLAGKRDWFGPGSRIIITTRD-------EHLLKL-HRVEEVFKLEALTYDEAFQL  312 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv~~-~--~~~~~l~~~~~~~~~~~~iliTtR~-------~~~~~~-~~~~~~~~l~~L~~~ea~~L  312 (483)
                      .-+-+.+-++|+|+++. .  +..+.|...+....+++.+|+++.+       ..+... ......++..+++.++..++
T Consensus        71 ~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~  150 (343)
T 1jr3_D           71 MSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRW  150 (343)
T ss_dssp             HHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHH
T ss_pred             cCCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHH
Confidence            01234566888999865 2  3444444433333467777766532       123333 33456899999999999998


Q ss_pred             HHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHH
Q 038919          313 FCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL  348 (483)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~l  348 (483)
                      +...+.....  ....+.+..+++.++|.+..+...
T Consensus       151 l~~~~~~~g~--~i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          151 VAARAKQLNL--ELDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHHHHHTTC--EECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHHHHHcCC--CCCHHHHHHHHHHhchHHHHHHHH
Confidence            8877643321  233466888999999999877643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.71  E-value=0.002  Score=57.03  Aligned_cols=42  Identities=17%  Similarity=0.188  Sum_probs=30.6

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+++|.+.+........+++|.|++|+|||||++.++..+..
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~   48 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSA   48 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            344454444432344689999999999999999999987653

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.69  E-value=0.0015  Score=63.36  Aligned_cols=49  Identities=24%  Similarity=0.192  Sum_probs=37.3

Q ss_pred             HhhhchhHHHHHHHHHhh-------------cCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMG-------------AGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~-------------~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|.+..++.+...+.             ........+.|+|++|+|||++|+.+++...
T Consensus        15 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           15 DYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HHCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hhccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            456898888888877662             1111245689999999999999999998763

>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=96.69  E-value=0.0026  Score=60.50  Aligned_cols=38  Identities=26%  Similarity=0.313  Sum_probs=27.7

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|..+|..+-....++.|+|++|+|||+||.+++....
T Consensus        95 ~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~  132 (324)
T 2z43_A           95 ALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQ  132 (324)
T ss_dssp             HHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             hHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHh
Confidence            34444532222346899999999999999999998654

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.69  E-value=0.0036  Score=60.38  Aligned_cols=95  Identities=20%  Similarity=0.242  Sum_probs=52.7

Q ss_pred             HHHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC--
Q 038919          153 EKLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD--  229 (483)
Q Consensus       153 ~~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~--  229 (483)
                      ..|..+|. .+-....++.|+|++|+||||||.+++......-..++|+. ....   .   ....   ... ++...  
T Consensus        60 ~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~-~E~s---~---~~~~---a~~-~g~d~~~  128 (366)
T 1xp8_A           60 LSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID-AEHA---L---DPVY---ARA-LGVNTDE  128 (366)
T ss_dssp             HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSCC---C---CHHH---HHH-TTCCGGG
T ss_pred             HHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE-CCCC---h---hHHH---HHH-cCCCHHH
Confidence            34455554 22223468999999999999999999987655434455554 3221   1   1111   111 11110  


Q ss_pred             ---CCccchhhhHHHHHHHHh-cCceEEEEcCC
Q 038919          230 ---NSIRNVYDGINMIGRRLR-QKKVLLVIDDV  258 (483)
Q Consensus       230 ---~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv  258 (483)
                         ....+.++....+....+ ...-+||+|.+
T Consensus       129 l~i~~~~~~e~~l~~l~~l~~~~~~~lVVIDsl  161 (366)
T 1xp8_A          129 LLVSQPDNGEQALEIMELLVRSGAIDVVVVDSV  161 (366)
T ss_dssp             CEEECCSSHHHHHHHHHHHHTTTCCSEEEEECT
T ss_pred             ceeecCCcHHHHHHHHHHHHhcCCCCEEEEeCh
Confidence               112344555555555554 34569999988

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.64  E-value=0.00095  Score=57.31  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=22.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|.|+|++|+||||+|+.+++++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5799999999999999999998764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.62  E-value=0.0013  Score=62.85  Aligned_cols=47  Identities=23%  Similarity=0.287  Sum_probs=39.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.++|++..++.+...+..+    ..+.|+|++|+|||+||+.+++.....
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~~   73 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDLD   73 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTCC
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            46899999998888877643    358899999999999999999876543

>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=96.54  E-value=0.0064  Score=58.91  Aligned_cols=111  Identities=13%  Similarity=0.150  Sum_probs=62.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ...+++|+|+.|+|||||++.++..+.....+.+.+..-.-.......        . .+....... .+.......+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~--------~-~~v~Q~~~g-~~~~~~~~~l~~  204 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHK--------K-SIVNQREVG-EDTKSFADALRA  204 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCS--------S-SEEEEEEBT-TTBSCSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccC--------c-eEEEeeecC-CCHHHHHHHHHH
Confidence            347899999999999999999998765442344433211000000000        0 000000000 011233456777


Q ss_pred             HHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          245 RLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       245 ~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                      .++..+-+|++|.+.+.+.+...+...   ..|..|+.|+....
T Consensus       205 ~L~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          205 ALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNT  245 (372)
T ss_dssp             HTTSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCS
T ss_pred             HhhhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcch
Confidence            788888899999998777665544332   34556777777543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.51  E-value=0.0074  Score=53.51  Aligned_cols=27  Identities=22%  Similarity=0.262  Sum_probs=24.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++|.|.|+||+||||.|+.+++++
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            457899999999999999999999865

>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=96.50  E-value=0.011  Score=58.44  Aligned_cols=35  Identities=37%  Similarity=0.587  Sum_probs=26.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +.++|+|.+|+|||||+..++......+...+.+.
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~  186 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFA  186 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEE
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEe
Confidence            46899999999999999999987665444433333

>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=96.46  E-value=0.0065  Score=53.49  Aligned_cols=87  Identities=15%  Similarity=0.142  Sum_probs=46.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc----ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY----DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIG  243 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~----~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~  243 (483)
                      +|.|.|+||+||||.|+.+++++.     ...+. .++..    .....+..    ..........  ..+.+.....+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g-----~~~is-tGdllR~~i~~~t~lg~----~~~~~~~~G~--lvpd~iv~~lv~   69 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG-----FVHIS-TGDILREAVQKGTPLGK----KAKEYMERGE--LVPDDLIIALIE   69 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC-----CEEEE-HHHHHHHHHHHTCHHHH----HHHHHHHHTC--CCCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC-----CeEEc-HHHHHHHHHHhcChhhh----hHHHHHhcCC--cCCHHHHHHHHH
Confidence            477899999999999999998642     11222 11100    00000011    1111122111  223344566677


Q ss_pred             HHHhcCceEEEEcCC-CCHHHHHHH
Q 038919          244 RRLRQKKVLLVIDDV-AHVEQLRRL  267 (483)
Q Consensus       244 ~~l~~~~~LlVlDdv-~~~~~~~~l  267 (483)
                      +.+..... +|||.+ .+..|.+.|
T Consensus        70 ~~l~~~~~-~ilDGfPRt~~Qa~~l   93 (206)
T 3sr0_A           70 EVFPKHGN-VIFDGFPRTVKQAEAL   93 (206)
T ss_dssp             HHCCSSSC-EEEESCCCSHHHHHHH
T ss_pred             HhhccCCc-eEecCCchhHHHHHHH
Confidence            77766554 789998 466665554

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.43  E-value=0.0017  Score=55.28  Aligned_cols=25  Identities=20%  Similarity=0.080  Sum_probs=22.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|.|++|+||||+++.++.++.
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            3789999999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.43  E-value=0.004  Score=58.04  Aligned_cols=31  Identities=23%  Similarity=0.240  Sum_probs=26.1

Q ss_pred             CCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          162 GCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       162 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ......+|+|.|++|+||||||+.+...+..
T Consensus        27 ~~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           27 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3445789999999999999999999887654

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.37  E-value=0.026  Score=52.94  Aligned_cols=36  Identities=31%  Similarity=0.325  Sum_probs=28.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|++|+||||++..++..+... ...+.+.
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~-g~kV~lv  138 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE-GKSVVLA  138 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc-CCEEEEE
Confidence            36799999999999999999999887654 3334443

>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=96.33  E-value=0.0035  Score=56.86  Aligned_cols=40  Identities=20%  Similarity=0.026  Sum_probs=28.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.++.+.+.........|+|.|++|+||||+|+.+++++
T Consensus        14 ~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           14 LLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3334443333222345789999999999999999998865

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.33  E-value=0.0058  Score=57.58  Aligned_cols=52  Identities=13%  Similarity=0.158  Sum_probs=34.9

Q ss_pred             hHHHHHHHHHhhcCCC-CcEEEEEeCCCCCChhHHHHHHHHHhh-cccceeEEE
Q 038919          149 ESRLEKLKFLMGAGCN-DVRMIGIWGMGGLGKTTLARVVYDLIS-HEFDGSSFL  200 (483)
Q Consensus       149 ~~~l~~l~~~L~~~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~f~~~~~~  200 (483)
                      ...++.+.+++..... ....+.|+|++|+|||+||..+++... .....+.++
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~  187 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLL  187 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEE
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEE
Confidence            3344455556654222 246789999999999999999999876 543333443

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.32  E-value=0.0022  Score=55.42  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.|.|+|++|+||||+|+.++.++.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998763

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.32  E-value=0.03  Score=55.68  Aligned_cols=65  Identities=14%  Similarity=0.127  Sum_probs=39.9

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccc-eeEEEEecccccccCCcHHHHHHHHHHHHh
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFD-GSSFLADVKEKYDKEGSVISLQKQLISDLL  225 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~  225 (483)
                      ..|..++ .+-....++.|.|.+|+|||+||.+++........ .++|+. ..     ... ..+...++....
T Consensus       188 ~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s-lE-----~~~-~~l~~R~~~~~~  253 (444)
T 2q6t_A          188 KELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS-LE-----MPA-AQLTLRMMCSEA  253 (444)
T ss_dssp             HHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE-SS-----SCH-HHHHHHHHHHHT
T ss_pred             Hhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE-CC-----CCH-HHHHHHHHHHHc
Confidence            3444444 33334568999999999999999999987764322 344443 21     112 556666555433

>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=96.31  E-value=0.0062  Score=57.79  Aligned_cols=38  Identities=21%  Similarity=0.296  Sum_probs=28.3

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..|..+|..+-....++.|+|++|+|||+||.+++...
T Consensus        85 ~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           85 SELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            44555554332345799999999999999999998753

>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=96.30  E-value=0.0076  Score=57.83  Aligned_cols=38  Identities=29%  Similarity=0.469  Sum_probs=28.6

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|..+|..+-....++.|+|++|+|||||+..++....
T Consensus       119 ~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A          119 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34445543333458999999999999999999998763

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.28  E-value=0.0025  Score=55.89  Aligned_cols=26  Identities=31%  Similarity=0.330  Sum_probs=23.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|+|.|++|+||||+++.++..+.
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            46899999999999999999998763

>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=96.25  E-value=0.063  Score=47.97  Aligned_cols=26  Identities=23%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||.+.++.-+.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            35899999999999999999987543

>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=96.25  E-value=0.0059  Score=58.50  Aligned_cols=29  Identities=21%  Similarity=0.007  Sum_probs=24.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .+.++|+|++|+|||||+..+++.+...+
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i~~~~  202 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSIAYNH  202 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHHHC
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhhcC
Confidence            47899999999999999999988765543

>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=96.23  E-value=0.005  Score=53.98  Aligned_cols=27  Identities=30%  Similarity=0.416  Sum_probs=24.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|++|+|||||++.++..+.
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            357999999999999999999998876

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.21  E-value=0.043  Score=51.76  Aligned_cols=36  Identities=19%  Similarity=0.253  Sum_probs=28.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|++|+||||++..++..+... ...+.+.
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~-g~kVlli  139 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL-GYKVLIA  139 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEE
Confidence            46799999999999999999999877654 3344444

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.21  E-value=0.0027  Score=54.37  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+|.|.|++|+||||+|+.++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.21  E-value=0.02  Score=51.59  Aligned_cols=26  Identities=19%  Similarity=0.355  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||++.++.-+.
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            36899999999999999999987543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.20  E-value=0.0024  Score=64.25  Aligned_cols=45  Identities=18%  Similarity=0.153  Sum_probs=37.9

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +.++|++..++.+...+..+    ..+.|+|++|+|||+||+.+++...
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHHh
Confidence            46899999998888777643    4689999999999999999998764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.20  E-value=0.031  Score=53.04  Aligned_cols=35  Identities=17%  Similarity=0.106  Sum_probs=27.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..++.|.|.+|+||||||..++......-..+.|+
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~f   80 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVF   80 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            46899999999999999999998766533334444

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.18  E-value=0.0044  Score=53.67  Aligned_cols=26  Identities=23%  Similarity=0.451  Sum_probs=23.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..|.|.|++|+||||+++.+++++..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999998764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.15  E-value=0.002  Score=55.68  Aligned_cols=28  Identities=36%  Similarity=0.504  Sum_probs=23.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      |.|+|+|++|+|||||++.+..+....|
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            4688999999999999999988654443

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.15  E-value=0.0032  Score=53.43  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++|+|.|++|+||||+++.++.++.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>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=96.14  E-value=0.0039  Score=54.08  Aligned_cols=25  Identities=28%  Similarity=0.294  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+|.|.|++|+||||+++.++..+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4789999999999999999999876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.14  E-value=0.0099  Score=56.06  Aligned_cols=51  Identities=27%  Similarity=0.315  Sum_probs=37.3

Q ss_pred             HHhhhchhHHHHHHHHHhhcC--CCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          142 LKELVGIESRLEKLKFLMGAG--CNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +.-++|-...+..+...+...  ...+.+++|.|++|+|||||++.+...+..
T Consensus        66 l~~~~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~~  118 (321)
T 3tqc_A           66 LSFYVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLSR  118 (321)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             HHHhhcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            355667767777666544432  334679999999999999999998876653

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.13  E-value=0.0029  Score=60.74  Aligned_cols=47  Identities=23%  Similarity=0.291  Sum_probs=34.2

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|.+...+.+...+...  ...-+.|+|++|+|||+||+.+++...
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            46899988665554433321  123489999999999999999998664

>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=96.10  E-value=0.018  Score=53.74  Aligned_cols=28  Identities=25%  Similarity=0.305  Sum_probs=24.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...+++|+|++|+||||++..++..+..
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            3579999999999999999999987764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.06  E-value=0.0051  Score=53.60  Aligned_cols=41  Identities=17%  Similarity=0.205  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .-+..+..++.. -+....+.|+|++|+|||++|..+++.+.
T Consensus        43 ~f~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           43 TFLGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345666666663 22335799999999999999999998764

>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=96.03  E-value=0.0036  Score=54.31  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|++|+|||||++.++..
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            478999999999999999999875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.02  E-value=0.0071  Score=52.22  Aligned_cols=29  Identities=34%  Similarity=0.465  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...++.|.|++|+||||+++.++..+...
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            35789999999999999999999987643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.02  E-value=0.0029  Score=53.90  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+++|+|++|+|||||++.++..+.
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            4799999999999999999998654

>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=96.01  E-value=0.0031  Score=54.24  Aligned_cols=25  Identities=32%  Similarity=0.357  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.|.|+|++|+||||+++.+++.+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999865

>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=95.99  E-value=0.004  Score=53.87  Aligned_cols=26  Identities=23%  Similarity=0.482  Sum_probs=23.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+|+|.|++|+||||+++.++.++..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999999999997764

>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=95.98  E-value=0.0057  Score=52.18  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|++|+||||+++.++..+
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            4789999999999999999998865

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.98  E-value=0.0068  Score=51.36  Aligned_cols=36  Identities=19%  Similarity=0.156  Sum_probs=27.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~  200 (483)
                      ..++++|.|..|+|||||+..+...+... +...++.
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            35789999999999999999999887654 4444433

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.98  E-value=0.0068  Score=57.63  Aligned_cols=48  Identities=19%  Similarity=0.256  Sum_probs=32.4

Q ss_pred             chhHHHHHHHHHhhc--CCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          147 GIESRLEKLKFLMGA--GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       147 GR~~~l~~l~~~L~~--~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +-+...+.+.+.+..  ..+....+.|.|++|+||||+++.++..+...|
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            334444444444432  233456799999999999999999998765443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.97  E-value=0.0074  Score=56.21  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=23.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++.|.|++|+||||+|+.++.++
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999998865

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.96  E-value=0.0042  Score=53.43  Aligned_cols=26  Identities=12%  Similarity=0.300  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|+|++|+|||||++.+.....
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            36899999999999999999988654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.95  E-value=0.0045  Score=56.56  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=22.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+++|.|++|+||||||+.++.+..
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            4789999999999999999998654

>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=95.94  E-value=0.0041  Score=54.97  Aligned_cols=28  Identities=25%  Similarity=0.304  Sum_probs=24.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...+++|.|++|+|||||++.++..+..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            3578999999999999999999986543

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.92  E-value=0.0037  Score=54.87  Aligned_cols=25  Identities=20%  Similarity=0.383  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+|+|.|++|+||||+|+.++..+
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            3589999999999999999999876

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.91  E-value=0.0046  Score=54.19  Aligned_cols=25  Identities=40%  Similarity=0.510  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|++|+|||||++.++..+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999999876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.91  E-value=0.005  Score=53.44  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998865

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.91  E-value=0.0048  Score=56.32  Aligned_cols=28  Identities=21%  Similarity=0.413  Sum_probs=23.9

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ....+|+|.|++|+||||+|+.+...+.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3457899999999999999999988654

>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=95.90  E-value=0.0036  Score=53.98  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++|+|+|++|+||||+|+.++.++.
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            4689999999999999999998754

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.89  E-value=0.11  Score=48.53  Aligned_cols=28  Identities=29%  Similarity=0.292  Sum_probs=24.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++++|.+|+||||++..++..+...
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            6789999999999999999999877654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.87  E-value=0.0044  Score=52.97  Aligned_cols=24  Identities=38%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.|.|++|+||||+|+.++.++.
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            589999999999999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.86  E-value=0.0057  Score=52.70  Aligned_cols=25  Identities=24%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...|+|.|++|+||||+++.+++++
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998865

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.85  E-value=0.098  Score=51.42  Aligned_cols=29  Identities=21%  Similarity=0.285  Sum_probs=25.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.+|.++|.+|+||||++..++..+...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999999877654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.85  E-value=0.0056  Score=53.65  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+|+|.|++|+||||+++.+++.+
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            45789999999999999999998864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.85  E-value=0.0038  Score=53.67  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=18.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|.|.|++|+||||+|+.++.++.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999988654

>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=95.84  E-value=0.0059  Score=52.70  Aligned_cols=24  Identities=33%  Similarity=0.289  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|+|++|+||||+++.++..
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            468999999999999999999886

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.81  E-value=0.0051  Score=53.47  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+|+|.|++|+||||+|+.+++.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999865

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.80  E-value=0.0062  Score=53.64  Aligned_cols=27  Identities=30%  Similarity=0.472  Sum_probs=24.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..|+|.|++|+||||+|+.+++++...
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            689999999999999999999987654

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.80  E-value=0.066  Score=53.31  Aligned_cols=28  Identities=18%  Similarity=0.183  Sum_probs=24.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...++.|.|.+|+|||||+..++..+..
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~  229 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVAT  229 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3468999999999999999999987764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.78  E-value=0.0051  Score=53.83  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|+|.|++|+||||+++.+++.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            589999999999999999998765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.77  E-value=0.06  Score=53.32  Aligned_cols=47  Identities=19%  Similarity=0.121  Sum_probs=32.1

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..|.+++. +-....++.|.|.+|+||||||.+++......-..++|+
T Consensus       185 ~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~f  231 (444)
T 3bgw_A          185 TELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLH  231 (444)
T ss_dssp             HHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             HHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEE
Confidence            34444442 223356899999999999999999998776542334444

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.77  E-value=0.024  Score=49.52  Aligned_cols=23  Identities=26%  Similarity=0.149  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -+..|+|.+|+|||++|......
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            36789999999999999876543

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.76  E-value=0.0042  Score=54.65  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=23.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|++|+|||||++.+.....
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            46899999999999999999988763

>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=95.76  E-value=0.017  Score=56.32  Aligned_cols=38  Identities=21%  Similarity=0.322  Sum_probs=27.7

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +..|..+|..+-....++.|+|++|+|||||+..++-.
T Consensus       164 ~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          164 SKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             CHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            34555556433233579999999999999999988744

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.76  E-value=0.005  Score=53.66  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=22.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|.|++|+||||+|+.+++++.
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            5899999999999999999998764

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.75  E-value=0.0081  Score=53.04  Aligned_cols=28  Identities=21%  Similarity=0.297  Sum_probs=24.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+|+|.|++|+||||+++.+++++...
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            4689999999999999999999987644

>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=95.75  E-value=0.048  Score=55.15  Aligned_cols=37  Identities=11%  Similarity=-0.061  Sum_probs=28.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  201 (483)
                      ...++.|.|.+|+||||||.+++...... -..++|+.
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            45789999999999999999999887654 23344443

>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=95.75  E-value=0.0046  Score=52.61  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|.|++|+||||+|+.++.++.
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            3689999999999999999998764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.74  E-value=0.013  Score=67.66  Aligned_cols=94  Identities=21%  Similarity=0.263  Sum_probs=53.8

Q ss_pred             HHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhccc-----
Q 038919          155 LKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLA-----  228 (483)
Q Consensus       155 l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~-----  228 (483)
                      |..+|. .+-...+.+.|+|++|+|||+||.+++......-..+.|+. ..+.   ...   +.   +..+ +..     
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~-~e~~---~~~---l~---a~~~-G~dl~~l~ 1483 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEHA---LDP---IY---ARKL-GVDIDNLL 1483 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC-TTSC---CCH---HH---HHHT-TCCTTTCE
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE-cccc---cCH---HH---HHHc-CCCchhce
Confidence            444554 22223578999999999999999999987766544555554 2211   111   11   2221 100     


Q ss_pred             CCCccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          229 DNSIRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       229 ~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                      -..+.+.++....++...+ .++-+||+|.+.
T Consensus      1484 v~~~~~~E~~l~~~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1484 CSQPDTGEQALEICDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             EECCSSHHHHHHHHHHHHHHTCCSEEEESCGG
T ss_pred             eecCChHHHHHHHHHHHHhcCCCCEEEEcChh
Confidence            0112233444555554443 577899999983

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.74  E-value=0.0085  Score=54.13  Aligned_cols=36  Identities=17%  Similarity=0.071  Sum_probs=27.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..++.|.|++|+|||||+.+++......-..++|+.
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            468999999999999999998876654433444443

>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=95.72  E-value=0.0072  Score=52.93  Aligned_cols=26  Identities=23%  Similarity=0.196  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999998763

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.72  E-value=0.0061  Score=54.25  Aligned_cols=26  Identities=23%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|+|.|++|+||||+|+.++..+.
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            45799999999999999999998663

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=95.71  E-value=0.048  Score=53.53  Aligned_cols=29  Identities=28%  Similarity=0.212  Sum_probs=25.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...++.++|++|+||||++..++..+...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            36899999999999999999999877654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.70  E-value=0.0068  Score=51.25  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|+|.|++|+||||+|+.+.+.+.
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            589999999999999999998764

>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=95.69  E-value=0.0079  Score=52.02  Aligned_cols=26  Identities=19%  Similarity=0.166  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|+|.|++|+||||+|+.++..+.
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            46899999999999999999988653

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=95.68  E-value=0.013  Score=55.80  Aligned_cols=104  Identities=15%  Similarity=0.139  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL  246 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l  246 (483)
                      ..++|+|+.|+|||||++.++..+... .+.+.+.+..+.... .. .        .......   ..-......+...+
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--------NYTQLFF---GGNITSADCLKSCL  237 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTT-SCEEEEESSCCCCCS-SC-S--------SEEEEEC---BTTBCHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCC-CcEEEECCeeccccc-cc-h--------hEEEEEe---CCChhHHHHHHHHh
Confidence            579999999999999999998766442 445555433211100 00 0        0000000   01123344566777


Q ss_pred             hcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCH
Q 038919          247 RQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDE  287 (483)
Q Consensus       247 ~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~  287 (483)
                      ..++-+|++|.+.+.+.++.+. .+.  ..+.-+|+|+...
T Consensus       238 ~~~p~ilildE~~~~e~~~~l~-~~~--~g~~tvi~t~H~~  275 (330)
T 2pt7_A          238 RMRPDRIILGELRSSEAYDFYN-VLC--SGHKGTLTTLHAG  275 (330)
T ss_dssp             TSCCSEEEECCCCSTHHHHHHH-HHH--TTCCCEEEEEECS
T ss_pred             hhCCCEEEEcCCChHHHHHHHH-HHh--cCCCEEEEEEccc
Confidence            8888899999997755444332 221  1122356666643

>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=95.67  E-value=0.046  Score=50.81  Aligned_cols=25  Identities=24%  Similarity=0.438  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++.-.
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999988654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.66  E-value=0.0064  Score=53.31  Aligned_cols=25  Identities=28%  Similarity=0.398  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.65  E-value=0.011  Score=61.21  Aligned_cols=51  Identities=24%  Similarity=0.440  Sum_probs=42.5

Q ss_pred             HHHHHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          139 SEILKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       139 ~~~i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.....++|.+..++.+...+..+    ..+.|+|++|+||||||+.++..+...
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             ccccceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            344578999999999888888754    479999999999999999999876544

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.64  E-value=0.0076  Score=55.27  Aligned_cols=26  Identities=27%  Similarity=0.571  Sum_probs=23.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|.|.|++|+||||+|+.++..+.
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            46899999999999999999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.63  E-value=0.0075  Score=53.19  Aligned_cols=27  Identities=37%  Similarity=0.402  Sum_probs=23.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|+.|+|||||++.++..+.
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            357899999999999999999988654

>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=95.61  E-value=0.007  Score=54.96  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=23.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|++|+|||||++.+++++.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999997653

>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=95.60  E-value=0.007  Score=54.03  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=22.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|+|++|+||||+++.++..+.
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            5799999999999999999988653

>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=95.60  E-value=0.0073  Score=52.27  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+++|.|++|+|||||++.++.
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            5789999999999999999986

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.60  E-value=0.023  Score=54.58  Aligned_cols=40  Identities=20%  Similarity=0.301  Sum_probs=29.6

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+...+........+|+|+|.+|+|||||+..++..+...
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            3333443334457899999999999999999998876543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.59  E-value=0.0074  Score=52.31  Aligned_cols=25  Identities=36%  Similarity=0.676  Sum_probs=22.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +|+|.|++|+||||+++.+++++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999997743

>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=95.59  E-value=0.049  Score=53.71  Aligned_cols=28  Identities=29%  Similarity=0.481  Sum_probs=24.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.++|.|.+|+|||+|+..+++.+...
T Consensus       153 GQr~~Ifgg~G~GKT~L~~~i~~~~~~~  180 (482)
T 2ck3_D          153 GGKIGLFGGAGVGKTVLIMELINNVAKA  180 (482)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHTTTT
T ss_pred             CCeeeeecCCCCChHHHHHHHHHhhHhh
Confidence            4689999999999999999999886543

>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=95.57  E-value=0.0074  Score=52.75  Aligned_cols=25  Identities=36%  Similarity=0.444  Sum_probs=22.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...+|+|+|+.|+||||+++.++..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4678999999999999999999885

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.57  E-value=0.007  Score=53.35  Aligned_cols=28  Identities=18%  Similarity=0.370  Sum_probs=24.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+|+|.|++|+||||+++.+++++...
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            4689999999999999999999877543

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.55  E-value=0.021  Score=54.11  Aligned_cols=29  Identities=24%  Similarity=0.306  Sum_probs=25.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+++|+|+.|+||||++..++..+...
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            46899999999999999999999876654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.54  E-value=0.0076  Score=52.88  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|++|+||||+++.+....
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            3689999999999999999998865

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.51  E-value=0.0084  Score=51.45  Aligned_cols=24  Identities=38%  Similarity=0.495  Sum_probs=21.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++|+|++|+|||||++.++..+.
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            588999999999999999997664

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.50  E-value=0.0078  Score=52.43  Aligned_cols=27  Identities=11%  Similarity=0.335  Sum_probs=23.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++++|+|++|+|||||++.+.....
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

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.50  E-value=0.0082  Score=53.17  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=20.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|+|.|++|+||||+|+.++.++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>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=95.50  E-value=0.022  Score=57.94  Aligned_cols=39  Identities=26%  Similarity=0.246  Sum_probs=28.2

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +...|..+-....+++|.|++|+|||||+..++......
T Consensus       270 ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~  308 (525)
T 1tf7_A          270 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN  308 (525)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            334444322234689999999999999999999866543

>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=95.49  E-value=0.099  Score=50.39  Aligned_cols=48  Identities=25%  Similarity=0.321  Sum_probs=33.2

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++|....+.++...+..-......+.|+|.+|+||+++|+.+...-.
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~  177 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSG  177 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcc
Confidence            577877777666665543111223477999999999999998876543

>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=95.46  E-value=0.039  Score=54.62  Aligned_cols=40  Identities=33%  Similarity=0.481  Sum_probs=28.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKE  205 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  205 (483)
                      .+.++|.|.+|+|||+|+.++++.+.......+.+..+.+
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGE  204 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGE  204 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESC
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEccc
Confidence            4679999999999999999999986543333333333443

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.46  E-value=0.01  Score=50.83  Aligned_cols=27  Identities=22%  Similarity=0.321  Sum_probs=23.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+++|+|+.|+||||+++.++..+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            468999999999999999999987643

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.43  E-value=0.2  Score=49.33  Aligned_cols=37  Identities=16%  Similarity=0.243  Sum_probs=28.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      .+++|.++|.+|+||||++..++..+.......+.+.
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllv  135 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVV  135 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEE
Confidence            4689999999999999999999988776523334443

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.43  E-value=0.015  Score=53.04  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=23.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...++.|.|++|+||||+|+.++..+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999998754

>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=95.40  E-value=0.0077  Score=52.82  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +|+|+|++|+||||+++.++.
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            689999999999999999987

>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=95.38  E-value=0.0095  Score=51.80  Aligned_cols=26  Identities=27%  Similarity=0.427  Sum_probs=23.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+|+|+|+.|+||||+++.+.+.+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998863

>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=95.36  E-value=0.009  Score=52.54  Aligned_cols=26  Identities=38%  Similarity=0.510  Sum_probs=22.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+++|+|++|+||||+++.+...+
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            45789999999999999999998753

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.35  E-value=0.0088  Score=52.98  Aligned_cols=23  Identities=22%  Similarity=0.331  Sum_probs=20.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|+|.|++|+||||+|+.++.++
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            47899999999999999998754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.35  E-value=0.0082  Score=51.13  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      ..+++|.|++|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999643

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.35  E-value=0.03  Score=49.79  Aligned_cols=41  Identities=24%  Similarity=0.285  Sum_probs=29.5

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+.+...+..  ...+.|+|+|.+|+|||||+..++......
T Consensus        25 ~a~~~r~~~~~--~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           25 LADKNRKLLNK--HGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             HHHHHHHHHHH--TTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHh--CCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            34444444442  245789999999999999999999875443

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.34  E-value=0.01  Score=58.50  Aligned_cols=51  Identities=20%  Similarity=0.262  Sum_probs=36.2

Q ss_pred             HhhhchhHHHHHHHHHhhc------------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFLMGA------------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~------------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++|.+...+.+...+..            .....+-+.++|++|+|||++|+.++..+...
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            4567877777777655421            00123568999999999999999999876443

>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=95.33  E-value=0.009  Score=52.50  Aligned_cols=22  Identities=41%  Similarity=0.573  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+++|+|++|+||||+++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=95.33  E-value=0.018  Score=52.54  Aligned_cols=40  Identities=15%  Similarity=0.131  Sum_probs=30.6

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      -...+..++....+....+.|+|++|+|||.+|..+++.+
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            3445677777542445679999999999999999999853

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.32  E-value=0.017  Score=54.43  Aligned_cols=38  Identities=18%  Similarity=0.317  Sum_probs=29.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      +.++|+|+|-||+||||.+..++..+...-. .+.+.+.
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aLA~~Gk-kVllID~   84 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAFSILGK-RVLQIGC   84 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTC-CEEEEEE
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHHHCCC-eEEEEec
Confidence            5689999999999999999999887766533 3444433

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.28  E-value=0.017  Score=54.08  Aligned_cols=36  Identities=19%  Similarity=0.258  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|++|+|||||+..++..+... .+.+.+.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~-~g~V~l~  136 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL-GKKVMFC  136 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEEE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc-CCEEEEE
Confidence            35799999999999999999999877654 3344443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.28  E-value=0.019  Score=50.86  Aligned_cols=42  Identities=26%  Similarity=0.255  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+.+...+..  ...+.++|+|.+|+|||||+..+.......
T Consensus        16 ~~~~~~~~~~~~--~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           16 RLAEKNREALRE--SGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HHHHHHHHHHHH--HTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhcc--cCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            334444444432  245899999999999999999999876544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.26  E-value=0.011  Score=53.82  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=23.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|+|.|+.|+||||+++.++.++.
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            46899999999999999999998654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.26  E-value=0.0085  Score=53.61  Aligned_cols=25  Identities=24%  Similarity=0.239  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...|+|.|++|+||||+|+.++..+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3679999999999999999999865

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.25  E-value=0.0094  Score=52.15  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...|+|.|++|+||||+++.+++++
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            3689999999999999999999876

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.25  E-value=0.0081  Score=53.53  Aligned_cols=26  Identities=19%  Similarity=0.108  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|.|.|++|+||||+++.++.++.
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            45789999999999999999998764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.24  E-value=0.0087  Score=55.79  Aligned_cols=27  Identities=19%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+|+|.|+.|+||||+|+.+.+.+.
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            456899999999999999999988654

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.24  E-value=0.0099  Score=56.88  Aligned_cols=29  Identities=21%  Similarity=0.082  Sum_probs=24.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+.++|.|.+|+|||+|+.++++.+...
T Consensus       174 rGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~  202 (427)
T 3l0o_A          174 KGQRGMIVAPPKAGKTTILKEIANGIAEN  202 (427)
T ss_dssp             TTCEEEEEECTTCCHHHHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCChhHHHHHHHHHHhhc
Confidence            34688999999999999999999877643

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.21  E-value=0.014  Score=51.62  Aligned_cols=26  Identities=27%  Similarity=0.225  Sum_probs=23.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++.|.|++|+||||+++.++..+.
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            47899999999999999999998775

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.21  E-value=0.014  Score=52.98  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=23.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+++|.|+.|+|||||++.++..+
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            34789999999999999999998865

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.19  E-value=0.034  Score=52.07  Aligned_cols=35  Identities=26%  Similarity=0.284  Sum_probs=27.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...+++|+|+.|+||||++..++..+... .+.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~-~g~V~l  133 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE-GTKVLM  133 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHHT-TCCEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEE
Confidence            35799999999999999999999876543 333444

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.16  E-value=0.0097  Score=52.04  Aligned_cols=25  Identities=32%  Similarity=0.457  Sum_probs=22.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +.++|+|++|+|||||++.+...+.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            5799999999999999999987653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.12  E-value=0.0096  Score=52.86  Aligned_cols=24  Identities=21%  Similarity=0.212  Sum_probs=21.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..|+|.|++|+||||+|+.++.++
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999876

>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=95.09  E-value=0.07  Score=52.30  Aligned_cols=96  Identities=15%  Similarity=0.179  Sum_probs=54.0

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSI  232 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~  232 (483)
                      ..+...+.   ....+++|+|+.|+|||||.+.+...+... ...+++..-.-.......             .......
T Consensus       157 ~~L~~l~~---~~ggii~I~GpnGSGKTTlL~allg~l~~~-~g~I~~~ed~ie~~~~~~-------------~q~~v~~  219 (418)
T 1p9r_A          157 DNFRRLIK---RPHGIILVTGPTGSGKSTTLYAGLQELNSS-ERNILTVEDPIEFDIDGI-------------GQTQVNP  219 (418)
T ss_dssp             HHHHHHHT---SSSEEEEEECSTTSCHHHHHHHHHHHHCCT-TSCEEEEESSCCSCCSSS-------------EEEECBG
T ss_pred             HHHHHHHH---hcCCeEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEEecccchhccCCc-------------ceEEEcc
Confidence            34444443   234789999999999999999999877554 333443311000000000             0000000


Q ss_pred             cchhhhHHHHHHHHhcCceEEEEcCCCCHHHHH
Q 038919          233 RNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLR  265 (483)
Q Consensus       233 ~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~  265 (483)
                      .........++..++..+-++++.++.+.+...
T Consensus       220 ~~g~~f~~~lr~~Lrq~pd~i~vgEiRd~et~~  252 (418)
T 1p9r_A          220 RVDMTFARGLRAILRQDPDVVMVGEIRDLETAQ  252 (418)
T ss_dssp             GGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHH
T ss_pred             ccCcCHHHHHHHHhccCCCeEEEcCcCCHHHHH
Confidence            001123456777788888888999987765443

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.05  E-value=0.093  Score=48.86  Aligned_cols=36  Identities=25%  Similarity=0.240  Sum_probs=28.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|.+|+||||++..++..+... ...+.+.
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~-~~~v~l~  132 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK-GRRPLLV  132 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEe
Confidence            45789999999999999999999877654 3344444

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.04  E-value=0.011  Score=53.74  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=22.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..|+|+|++|+||||+++.++..+.
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            5799999999999999999998764

>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=95.03  E-value=0.015  Score=51.01  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=22.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +|+|.|++|+||||+++.++..+.
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            899999999999999999988654

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.03  E-value=0.016  Score=54.54  Aligned_cols=29  Identities=34%  Similarity=0.453  Sum_probs=25.0

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....+++|.|+.|+|||||++.++..+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            34679999999999999999999887654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.99  E-value=0.014  Score=55.23  Aligned_cols=25  Identities=32%  Similarity=0.238  Sum_probs=22.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+|+|.|++|+||||||..++..+.
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            5899999999999999999998654

>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=94.98  E-value=0.026  Score=47.28  Aligned_cols=26  Identities=38%  Similarity=0.364  Sum_probs=23.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+++|.|+.|.|||||++.++..+
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            34799999999999999999999876

>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=94.98  E-value=0.013  Score=51.53  Aligned_cols=26  Identities=27%  Similarity=0.443  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||++.+...+.
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            46899999999999999999987653

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.95  E-value=0.015  Score=52.14  Aligned_cols=26  Identities=19%  Similarity=0.364  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|++|+||||+++.++..+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999998764

>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=94.94  E-value=0.0087  Score=52.84  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=22.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +|+|.|+.|+||||+++.+...+..
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            6899999999999999999987754

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.94  E-value=0.015  Score=54.24  Aligned_cols=25  Identities=20%  Similarity=0.355  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++++|.|++|+||||||..++.++
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3689999999999999999999864

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.94  E-value=0.31  Score=48.82  Aligned_cols=29  Identities=24%  Similarity=0.265  Sum_probs=24.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..++|.|+|.+|+||||++..++..+...
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

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.93  E-value=0.015  Score=51.80  Aligned_cols=23  Identities=39%  Similarity=0.429  Sum_probs=21.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999876

>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=94.91  E-value=0.026  Score=48.12  Aligned_cols=27  Identities=22%  Similarity=0.382  Sum_probs=23.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .++++|.|+.|+|||||+..+...+..
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            578999999999999999999987654

>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=94.91  E-value=0.015  Score=51.76  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=23.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+++|.|+.|+|||||.+.+.....
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            46899999999999999999988664

>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=94.89  E-value=0.017  Score=51.12  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+|+|.|+.|+||||+++.+..
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            36899999999999999999976

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.89  E-value=0.018  Score=53.62  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=23.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++++|.|+.|+||||||..++.++
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35789999999999999999999864

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.88  E-value=0.035  Score=49.16  Aligned_cols=27  Identities=15%  Similarity=0.001  Sum_probs=23.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      -.|.+.|.||+||||+|..++......
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            458889999999999999999887655

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.87  E-value=0.047  Score=52.28  Aligned_cols=35  Identities=26%  Similarity=0.284  Sum_probs=27.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...+++|+|+.|+||||++..++..+... .+.+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~-~G~V~l  190 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE-GTKVLM  190 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHT-TCCEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhcccc-CCEEEE
Confidence            35799999999999999999999876543 333444

>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=94.87  E-value=0.015  Score=51.44  Aligned_cols=23  Identities=26%  Similarity=0.235  Sum_probs=20.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999866

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.87  E-value=0.014  Score=55.19  Aligned_cols=25  Identities=20%  Similarity=0.325  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|+|.|+.|+|||||+..++.++
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999865

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.87  E-value=0.013  Score=53.00  Aligned_cols=25  Identities=28%  Similarity=0.113  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++.|.|.+|+|||+||.+++...
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~   54 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKG   54 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999987654

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.86  E-value=0.016  Score=50.14  Aligned_cols=25  Identities=24%  Similarity=0.078  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.+.|.|++|+||||||.+++.+.
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            3678999999999999999999864

>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=94.86  E-value=0.017  Score=51.89  Aligned_cols=26  Identities=23%  Similarity=0.087  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...|.|.|++|+||||+|+.+++++.
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            35799999999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.85  E-value=0.013  Score=52.13  Aligned_cols=25  Identities=28%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|+|+.|+|||||++.++...
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            4689999999999999999998855

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.84  E-value=0.016  Score=54.58  Aligned_cols=26  Identities=31%  Similarity=0.296  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++++|+|++|+||||||..++.++.
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            36899999999999999999998653

>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=94.84  E-value=0.016  Score=53.80  Aligned_cols=24  Identities=25%  Similarity=0.595  Sum_probs=21.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...+|+|+|++|+||||+|+.+..
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

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.82  E-value=0.047  Score=62.34  Aligned_cols=96  Identities=22%  Similarity=0.272  Sum_probs=54.5

Q ss_pred             HHHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC--
Q 038919          153 EKLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD--  229 (483)
Q Consensus       153 ~~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~--  229 (483)
                      ..|..+|. .+-...+++.|+|++|+||||||.+++......-..++|+. ......      .+.   ... ++...  
T Consensus       369 ~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis-~E~s~~------~~~---a~~-lGvd~~~  437 (1706)
T 3cmw_A          369 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEHALD------PIY---ARK-LGVDIDN  437 (1706)
T ss_dssp             HHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC-TTSCCC------HHH---HHH-TTCCGGG
T ss_pred             HHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE-ccCchH------HHH---HHH-cCCCHHH
Confidence            44555554 22223579999999999999999999987765544555553 222111      111   122 11110  


Q ss_pred             ---CCccchhhhHHHHHHHHh-cCceEEEEcCCC
Q 038919          230 ---NSIRNVYDGINMIGRRLR-QKKVLLVIDDVA  259 (483)
Q Consensus       230 ---~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  259 (483)
                         ....+.++....+....+ .+.-+||+|.+.
T Consensus       438 L~i~~~~~~e~~l~~l~~lv~~~~~~lVVIDSL~  471 (1706)
T 3cmw_A          438 LLCSQPDTGEQALEICDALARSGAVDVIVVDSVA  471 (1706)
T ss_dssp             CEEECCSSHHHHHHHHHHHHHHTCCSEEEESCST
T ss_pred             eEEcCCCCHHHHHHHHHHHHHhcCCCEEEECCHH
Confidence               112344455555554443 466799999984

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.80  E-value=0.024  Score=48.83  Aligned_cols=27  Identities=22%  Similarity=0.070  Sum_probs=22.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .++.|+|+.|+||||++..++.+....
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~   30 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLG   30 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578899999999999998888776433

>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=94.70  E-value=0.12  Score=45.33  Aligned_cols=36  Identities=11%  Similarity=-0.131  Sum_probs=27.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...+..++|..|.||||.+...+.+...+-..++++
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~   62 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVF   62 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEE
Confidence            357889999999999999999988876554434443

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.63  E-value=0.013  Score=52.44  Aligned_cols=25  Identities=24%  Similarity=0.214  Sum_probs=16.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHH-HHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVY-DLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~-~~~  190 (483)
                      ..+++|+|+.|+|||||++.++ ...
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            4689999999999999999998 653

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=94.59  E-value=0.035  Score=53.62  Aligned_cols=27  Identities=33%  Similarity=0.243  Sum_probs=23.4

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .....++|+|++|+|||||++.++...
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            345799999999999999999999754

>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=94.57  E-value=0.031  Score=52.19  Aligned_cols=28  Identities=21%  Similarity=0.164  Sum_probs=24.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++|.|++|+|||||+..++..+...
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            4689999999999999999999877654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.56  E-value=0.019  Score=49.75  Aligned_cols=24  Identities=29%  Similarity=0.409  Sum_probs=21.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +++|+|+.|+|||||++.++..+.
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            689999999999999999988664

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=94.51  E-value=0.041  Score=50.15  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=23.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++.+.|.||+||||++..++..+.
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            57889999999999999999998776

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.48  E-value=0.026  Score=56.62  Aligned_cols=49  Identities=8%  Similarity=-0.066  Sum_probs=35.1

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...-|.+..+.+.+..........+|.+.|++|+||||+|+.++.++..
T Consensus       373 ~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3455555555666655322223478999999999999999999998864

>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=94.47  E-value=0.026  Score=53.11  Aligned_cols=27  Identities=41%  Similarity=0.444  Sum_probs=24.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++|.|+.|+|||||++.+...+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999988765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.46  E-value=0.061  Score=62.32  Aligned_cols=96  Identities=20%  Similarity=0.227  Sum_probs=55.0

Q ss_pred             HHHHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC-
Q 038919          152 LEKLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD-  229 (483)
Q Consensus       152 l~~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~-  229 (483)
                      ...|..+|. .+-....++.|+|++|+||||||.+++......-..++|+. .....      ..+.   ... ++... 
T Consensus       368 ~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis-~E~s~------~~~~---a~~-lGvd~~  436 (2050)
T 3cmu_A          368 SLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEHAL------DPIY---ARK-LGVDID  436 (2050)
T ss_dssp             CHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC-TTSCC------CHHH---HHH-TTCCTT
T ss_pred             CHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE-cCCCH------HHHH---HHH-cCCCHH
Confidence            345555554 22223579999999999999999999988765534445543 22211      1111   122 22111 


Q ss_pred             ----CCccchhhhHHHHHHHHh-cCceEEEEcCC
Q 038919          230 ----NSIRNVYDGINMIGRRLR-QKKVLLVIDDV  258 (483)
Q Consensus       230 ----~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv  258 (483)
                          ....+..+....++...+ ...-+||+|.+
T Consensus       437 ~L~I~~~~~~e~il~~~~~lv~~~~~~lIVIDSL  470 (2050)
T 3cmu_A          437 NLLCSQPDTGEQALEICDALARSGAVDVIVVDSV  470 (2050)
T ss_dssp             TCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCG
T ss_pred             HeEEeCCCCHHHHHHHHHHHHHhcCCcEEEECCH
Confidence                012344555555554443 46779999988

>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=94.43  E-value=0.023  Score=53.19  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=21.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+|.|.|++|+||||+|+.++.+
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            57999999999999999999874

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=94.37  E-value=0.2  Score=49.00  Aligned_cols=21  Identities=19%  Similarity=0.234  Sum_probs=19.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +++|+|+.|.|||||...++-
T Consensus        62 ~~~lvG~NGaGKStLl~aI~~   82 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALGL   82 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999998854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.36  E-value=0.023  Score=50.04  Aligned_cols=23  Identities=30%  Similarity=0.161  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+++|.|+.|+|||||++.++.-
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            58999999999999999998865

>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=94.30  E-value=0.021  Score=56.24  Aligned_cols=26  Identities=19%  Similarity=0.227  Sum_probs=23.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+|.|+|++|+||||+|+.++.+.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999998754

>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=94.30  E-value=0.033  Score=49.88  Aligned_cols=28  Identities=32%  Similarity=0.364  Sum_probs=25.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....|+|.|++|+||||+++.++..+..
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            3578999999999999999999998765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=94.26  E-value=0.042  Score=54.62  Aligned_cols=36  Identities=28%  Similarity=0.305  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|++|+|||||++.++..+... .+.+++.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~-~G~V~l~  327 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVMLA  327 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc-CCeEEEe
Confidence            46799999999999999999999877644 3445553

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.21  E-value=0.34  Score=49.80  Aligned_cols=25  Identities=24%  Similarity=0.437  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...++|+|+.|+|||||++.++.-+
T Consensus       369 G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3579999999999999999988643

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.20  E-value=0.042  Score=50.77  Aligned_cols=27  Identities=26%  Similarity=0.238  Sum_probs=23.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++.|+|++|+|||||+..++..+..
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            468999999999999999999876553

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.18  E-value=0.031  Score=50.22  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=23.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+|+|.|+.|+||||+++.++..+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999998865

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.18  E-value=0.014  Score=49.59  Aligned_cols=27  Identities=26%  Similarity=0.396  Sum_probs=23.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++++|+|..|+|||||++.+...+...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            579999999999999999999876653

>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=94.15  E-value=0.023  Score=51.08  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999988763

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.14  E-value=0.079  Score=60.55  Aligned_cols=88  Identities=20%  Similarity=0.201  Sum_probs=53.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGR  244 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~  244 (483)
                      ..++|-|+|+.|+||||||.++....+..-...+|+. ....   .+  ....+.+.-.+-...-..+..-++.+..+..
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~-~e~~---~~--~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEHA---LD--PIYARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC-TTSC---CC--HHHHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe-cCCC---CC--HHHHHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            3579999999999999999999988777666666664 2211   11  1222221111111111223344566666666


Q ss_pred             HHh-cCceEEEEcCC
Q 038919          245 RLR-QKKVLLVIDDV  258 (483)
Q Consensus       245 ~l~-~~~~LlVlDdv  258 (483)
                      .++ +..-+||+|-|
T Consensus      1504 ~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             HHHHTCCSEEEESCS
T ss_pred             HHHcCCCCEEEEccH
Confidence            666 45669999988

>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=94.07  E-value=0.27  Score=45.84  Aligned_cols=34  Identities=24%  Similarity=0.433  Sum_probs=25.6

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ++++...+.     ..+++|.|++|+|||||...+....
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhcccc
Confidence            444555544     2489999999999999999987643

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.05  E-value=0.028  Score=50.71  Aligned_cols=24  Identities=17%  Similarity=0.375  Sum_probs=21.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+++|.|+.|+|||||.+.++.-.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998643

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.93  E-value=0.055  Score=49.56  Aligned_cols=27  Identities=30%  Similarity=0.554  Sum_probs=23.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++|+|.|-||+||||+|..++..+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~   28 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHC
Confidence            567889999999999999999888755

>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=93.92  E-value=0.032  Score=55.01  Aligned_cols=28  Identities=32%  Similarity=0.369  Sum_probs=24.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.+|.|+|.+|+||||++..++..+...
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            5689999999999999999999877644

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.90  E-value=0.087  Score=50.11  Aligned_cols=29  Identities=28%  Similarity=0.445  Sum_probs=24.8

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....+++|.|++|+|||||...+...+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            34689999999999999999999876544

>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=93.89  E-value=0.033  Score=53.89  Aligned_cols=25  Identities=28%  Similarity=0.421  Sum_probs=22.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++|+|.|++|+||||||..++.++.
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            6899999999999999999998654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.89  E-value=0.024  Score=50.62  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999998763

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.86  E-value=0.034  Score=50.16  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=23.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +..|+|.|..|+||||+++.+++.+.
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            36799999999999999999998764

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=93.86  E-value=0.086  Score=50.28  Aligned_cols=29  Identities=24%  Similarity=0.361  Sum_probs=24.9

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....+++|+|.+|+|||||+..++..+..
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            45689999999999999999999876654

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.81  E-value=0.06  Score=54.49  Aligned_cols=30  Identities=17%  Similarity=0.187  Sum_probs=25.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ...+|.++|++|+||||+|+.++..+...+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            356899999999999999999998775444

>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=93.77  E-value=0.49  Score=42.13  Aligned_cols=21  Identities=33%  Similarity=0.360  Sum_probs=17.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      +.+.|.|+.|+||||+...+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHH
Confidence            579999999999998776554

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=93.76  E-value=0.073  Score=46.97  Aligned_cols=28  Identities=18%  Similarity=0.213  Sum_probs=24.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...|+|.|+.|+||||+++.+.+.+...
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            4689999999999999999999988654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=93.76  E-value=0.47  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ....++|+|.+|+|||||...+..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~  142 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAK  142 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCceEEEEecCCCchHHHHHHHhc
Confidence            345789999999999999998875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.76  E-value=0.03  Score=51.26  Aligned_cols=25  Identities=36%  Similarity=0.434  Sum_probs=21.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++.-.
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999988643

>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=93.74  E-value=0.034  Score=50.24  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            478999999999999999998863

>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=93.71  E-value=0.032  Score=50.59  Aligned_cols=27  Identities=26%  Similarity=0.343  Sum_probs=22.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+++|.|+.|+|||||.+.++.-+..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~p   52 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTSG   52 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            358999999999999999998865443

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.69  E-value=0.23  Score=43.04  Aligned_cols=33  Identities=18%  Similarity=0.258  Sum_probs=26.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .|+|-|.-|+||||.++.+++.+......+++.
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            478899999999999999999887764444444

>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=93.68  E-value=0.036  Score=50.35  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

>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=93.67  E-value=0.03  Score=51.63  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++.-
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            358999999999999999998763

>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=93.65  E-value=0.038  Score=50.71  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++.-
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            468999999999999999998874

>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=93.64  E-value=0.033  Score=51.01  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++.-+
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            4689999999999999999988643

>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=93.60  E-value=0.059  Score=50.32  Aligned_cols=26  Identities=15%  Similarity=0.299  Sum_probs=23.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+++|+|+.|+|||||++.+..-+
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            34789999999999999999998766

>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=93.59  E-value=0.032  Score=50.35  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999998863

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=93.59  E-value=0.067  Score=49.64  Aligned_cols=36  Identities=22%  Similarity=0.455  Sum_probs=27.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      ++|+|.|-||+||||+|..++..+... ...+.+.+.
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~-G~rVlliD~   38 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEM-GKKVMIVGC   38 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHT-TCCEEEEEE
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHC-CCeEEEEec
Confidence            678889999999999999999887654 223444333

>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=93.53  E-value=0.032  Score=51.14  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++.-
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999998863

>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=93.52  E-value=0.033  Score=50.83  Aligned_cols=24  Identities=33%  Similarity=0.394  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
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            368999999999999999998764

>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=93.50  E-value=0.035  Score=50.54  Aligned_cols=24  Identities=38%  Similarity=0.605  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
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            468999999999999999998864

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.50  E-value=0.14  Score=45.34  Aligned_cols=28  Identities=29%  Similarity=0.438  Sum_probs=25.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ....|+|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3578999999999999999999998765

>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=93.49  E-value=0.04  Score=47.60  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .-.++|.|.+|+|||||...+...
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            457899999999999999999874

>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=93.48  E-value=0.028  Score=49.67  Aligned_cols=24  Identities=29%  Similarity=0.610  Sum_probs=21.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+++|.|+.|+|||||.+.++.-.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            579999999999999999988643

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.48  E-value=0.036  Score=50.66  Aligned_cols=25  Identities=28%  Similarity=0.511  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||++.++.-+
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            3689999999999999999988644

>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=93.43  E-value=0.035  Score=50.30  Aligned_cols=24  Identities=38%  Similarity=0.646  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++.-
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999998764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.41  E-value=0.11  Score=46.31  Aligned_cols=28  Identities=29%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...|+|.|+.|+||||+++.+++.+...
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            4689999999999999999999987654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.41  E-value=0.052  Score=44.92  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.|+|.|.+|+|||||+..+...
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            46899999999999999998864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.39  E-value=0.05  Score=45.82  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+-+.|.|.+|+||||||.++..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            357899999999999999999885

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.38  E-value=0.039  Score=56.10  Aligned_cols=28  Identities=29%  Similarity=0.304  Sum_probs=24.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++|.|++|+|||||++.++..+...
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~~~  396 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLMEM  396 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhccc
Confidence            4789999999999999999999987653

>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=93.38  E-value=0.043  Score=47.62  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -.++|.|.+|+|||||...+...
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            46899999999999999999874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.36  E-value=0.039  Score=50.80  Aligned_cols=24  Identities=29%  Similarity=0.497  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++.-
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            468999999999999999998864

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.35  E-value=0.047  Score=47.76  Aligned_cols=26  Identities=19%  Similarity=0.110  Sum_probs=23.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+|+|.|+.|+||||+++.+++++.-
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            58999999999999999999998753

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=93.35  E-value=0.16  Score=54.88  Aligned_cols=23  Identities=26%  Similarity=0.026  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      ...+++|+|+.|.||||+.+.++
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35799999999999999999884

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.34  E-value=0.085  Score=46.23  Aligned_cols=29  Identities=34%  Similarity=0.541  Sum_probs=25.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      ..|+|-|.-|+||||+++.+++.+...++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~   31 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYD   31 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCC
Confidence            57899999999999999999998876544

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.34  E-value=0.048  Score=48.55  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      -.++|.|++|+||||+|+.+++.+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998865

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.28  E-value=0.091  Score=53.48  Aligned_cols=48  Identities=15%  Similarity=0.079  Sum_probs=32.8

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+-|.+..+.+.+..........+|.++|++|+||||+|+.+..++..
T Consensus       351 ~~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          351 WFTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            334444445555554322223578999999999999999999987654

>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=93.28  E-value=0.053  Score=45.45  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..++|.|.+|+|||||...+..
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            5689999999999999999986

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.27  E-value=0.041  Score=50.50  Aligned_cols=24  Identities=33%  Similarity=0.396  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999998763

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=93.22  E-value=0.57  Score=41.85  Aligned_cols=38  Identities=18%  Similarity=0.065  Sum_probs=27.1

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |..+.+.+..++..     +-+.|+|+.|.|||.+|..++...
T Consensus        95 ~~~Q~~ai~~~~~~-----~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           95 RDYQEKALERWLVD-----KRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CHHHHHHHHHHTTT-----SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHhC-----CCEEEEeCCCCCHHHHHHHHHHHc
Confidence            44455555555542     127889999999999998887764

>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=93.20  E-value=0.043  Score=53.58  Aligned_cols=25  Identities=20%  Similarity=0.373  Sum_probs=22.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...+++|.|++|+|||||.+.+...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            4579999999999999999999873

>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=93.16  E-value=0.16  Score=49.68  Aligned_cols=27  Identities=15%  Similarity=0.170  Sum_probs=22.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+.++|.|.+|+|||+|+.++++....
T Consensus       151 GQr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          151 GQKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CCEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            356889999999999999999887554

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.11  E-value=0.066  Score=46.02  Aligned_cols=25  Identities=28%  Similarity=0.121  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|+|.|.+|+|||||...+...
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            3457999999999999999998864

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.11  E-value=0.041  Score=50.81  Aligned_cols=25  Identities=28%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++.-+
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999988643

>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=93.11  E-value=0.04  Score=47.17  Aligned_cols=21  Identities=38%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||...++.
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            488999999999999999876

>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=93.09  E-value=0.15  Score=50.20  Aligned_cols=27  Identities=19%  Similarity=0.194  Sum_probs=22.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .+.++|.|.+|+|||+|+.++++....
T Consensus       152 GQr~~Ifgg~G~GKt~Ll~~Ia~~~~~  178 (469)
T 2c61_A          152 GQKLPIFSASGLPHNEIALQIARQASV  178 (469)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            366888999999999999999986543

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.07  E-value=0.042  Score=49.98  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++.-+
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999988644

>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=93.06  E-value=0.17  Score=49.61  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.++|.|.+|+|||+|+.++++...
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~~  172 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQAT  172 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHCB
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHH
Confidence            35688999999999999999988654

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.06  E-value=0.08  Score=54.17  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=24.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...+|.|+|++|+||||+|+.+..++..
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            3578999999999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.06  E-value=0.1  Score=49.97  Aligned_cols=29  Identities=21%  Similarity=0.314  Sum_probs=24.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...+|+|+|.+|+|||||...+.......
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~~~  101 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLTER  101 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhhhc
Confidence            36899999999999999999998765443

>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=93.04  E-value=0.5  Score=56.74  Aligned_cols=151  Identities=15%  Similarity=0.090  Sum_probs=0.0

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccc
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRN  234 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~  234 (483)
                      +..++..+    +-+.++|++|+|||++|+.+.......-...+-..                             ...+
T Consensus      1260 l~~~l~~~----~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infs-----------------------------a~ts 1306 (2695)
T 4akg_A         1260 FYDLLNSK----RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFS-----------------------------KDTT 1306 (2695)
T ss_dssp             HHHHHHHT----CEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECC-----------------------------TTCC
T ss_pred             HHHHHHCC----CeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEee-----------------------------cCCC


Q ss_pred             hhhhHHHHHHHH---------------hcCceEEEEcCCCCH-----------HHHHHHhcCCCCCCCCc---------E
Q 038919          235 VYDGINMIGRRL---------------RQKKVLLVIDDVAHV-----------EQLRRLAGKRDWFGPGS---------R  279 (483)
Q Consensus       235 ~~~~~~~l~~~l---------------~~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~---------~  279 (483)
                      .......+...+               .++++++.+||++-+           +.++.++..-.+.....         .
T Consensus      1307 ~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~ 1386 (2695)
T 4akg_A         1307 TEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIH 1386 (2695)
T ss_dssp             HHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEE
T ss_pred             HHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEE


Q ss_pred             EEEEcCCHh-------HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHh
Q 038919          280 IIITTRDEH-------LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA  338 (483)
Q Consensus       280 iliTtR~~~-------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  338 (483)
                      +|.++-.+.       -........++.++..+.++-..+|.......-...+.....+..++..+
T Consensus      1387 lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1387 IVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             EEEEECCTTSTTCCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHH
T ss_pred             EEEecCCCccCCCccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=93.03  E-value=0.22  Score=47.86  Aligned_cols=25  Identities=36%  Similarity=0.500  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.+.|+|+|.+|+|||||...+...
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCC
Confidence            4567999999999999999998864

>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=93.02  E-value=0.053  Score=51.18  Aligned_cols=26  Identities=31%  Similarity=0.358  Sum_probs=23.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++++|+|+.|+|||||.+.+....
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            46899999999999999999998753

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=93.00  E-value=0.1  Score=51.10  Aligned_cols=36  Identities=25%  Similarity=0.240  Sum_probs=27.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+++|+|++|+||||++..++..+... ...+.+.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~-g~~Vllv  132 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK-GRRPLLV  132 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT-TCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEe
Confidence            45789999999999999999999877654 3334443

>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=92.98  E-value=0.05  Score=46.46  Aligned_cols=24  Identities=21%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.+|+|+.|+|||||+.+++.-+
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            488999999999999999988754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.98  E-value=0.047  Score=48.28  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=21.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+|+|+|+.|+||||+++.++..+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999998864

>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=92.96  E-value=0.043  Score=49.06  Aligned_cols=25  Identities=28%  Similarity=0.108  Sum_probs=22.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...+++|.|+.|+|||||++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3579999999999999999998775

>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=92.96  E-value=0.16  Score=50.38  Aligned_cols=26  Identities=23%  Similarity=0.147  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHH-HHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLA-RVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa-~~~~~~~~  191 (483)
                      .+.++|.|.+|+|||+|| ..+++...
T Consensus       162 GQR~~I~g~~g~GKT~Lal~~I~~q~~  188 (510)
T 2ck3_A          162 GQRELIIGDRQTGKTSIAIDTIINQKR  188 (510)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHTHH
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            467899999999999995 56666655

>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=92.89  E-value=0.14  Score=48.93  Aligned_cols=30  Identities=27%  Similarity=0.438  Sum_probs=25.4

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ....++.+.|-||+||||+|..++..+...
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~   53 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEK   53 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHC
Confidence            446778888999999999999999887665

>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=92.87  E-value=0.1  Score=52.24  Aligned_cols=29  Identities=17%  Similarity=0.210  Sum_probs=24.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ..+|.++|++|+||||+++.++..+...|
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            46899999999999999999998765444

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.83  E-value=0.44  Score=48.99  Aligned_cols=23  Identities=30%  Similarity=0.573  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..++|+|+.|+|||||++.+..-
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999988763

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=92.83  E-value=0.099  Score=52.11  Aligned_cols=29  Identities=24%  Similarity=0.374  Sum_probs=24.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      +.+.|.|.+|+|||+++..++..+.....
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~~~~~   74 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALISTGE   74 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHhcCC
Confidence            38999999999999999999987765533

>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=92.75  E-value=0.11  Score=45.14  Aligned_cols=34  Identities=24%  Similarity=0.221  Sum_probs=25.2

Q ss_pred             EEEEEe-CCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          167 RMIGIW-GMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       167 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ++|+|+ +-||+||||+|..++..+...-. .+.+.
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~-~vlli   36 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGY-NIAVV   36 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTC-CEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCC-eEEEE
Confidence            467776 67999999999999988776433 34444

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=92.73  E-value=0.26  Score=48.90  Aligned_cols=25  Identities=28%  Similarity=0.141  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHH-HHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLAR-VVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~-~~~~~~  190 (483)
                      .+.++|.|.+|+|||+||. .+++..
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            4678999999999999964 666654

>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=92.73  E-value=2  Score=43.54  Aligned_cols=38  Identities=18%  Similarity=0.162  Sum_probs=28.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc---ceeEEEEecc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF---DGSSFLADVK  204 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f---~~~~~~~~~~  204 (483)
                      +-+.|.|.+|+|||+++..+...+...+   ...+++.+..
T Consensus       215 pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpK  255 (574)
T 2iut_A          215 PHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPK  255 (574)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSS
T ss_pred             CeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCC
Confidence            5689999999999999998887665433   2456665544

>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=92.70  E-value=0.034  Score=50.86  Aligned_cols=27  Identities=26%  Similarity=0.377  Sum_probs=23.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ....|+|.|..|+||||+++.+++.+.
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            357899999999999999999888653

>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=92.68  E-value=0.098  Score=46.89  Aligned_cols=28  Identities=32%  Similarity=0.528  Sum_probs=24.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...|+|.|+.|+||||+++.+++.+...
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            4689999999999999999999987654

>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=92.68  E-value=0.058  Score=44.67  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|++.|.+|+|||||+..+...
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            4889999999999999999864

>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=92.63  E-value=0.083  Score=43.97  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            346889999999999999999864

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=92.62  E-value=0.4  Score=46.99  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...++..|.|.+|.||||+..+.++
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            4578999999999999999988775

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.61  E-value=0.077  Score=45.31  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
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            357999999999999999999863

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.61  E-value=0.054  Score=49.53  Aligned_cols=24  Identities=42%  Similarity=0.563  Sum_probs=21.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+++|.|+.|+|||||.+.++.-.
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            589999999999999999998755

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=92.60  E-value=0.13  Score=49.07  Aligned_cols=36  Identities=28%  Similarity=0.379  Sum_probs=28.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh--cccceeEEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS--HEFDGSSFLA  201 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~f~~~~~~~  201 (483)
                      ..+++.+.|-||+||||+|..++..+.  .. ...+.+.
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~-g~~vlli   54 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQP-NEQFLLI   54 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHCT-TSCEEEE
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcC-CCeEEEE
Confidence            458999999999999999999998877  44 3334444

>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=92.57  E-value=0.19  Score=49.85  Aligned_cols=25  Identities=24%  Similarity=0.143  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHH-HHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLAR-VVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~-~~~~~~  190 (483)
                      .+.++|.|.+|+|||+||. .+++..
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            4678999999999999964 666654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.56  E-value=0.059  Score=49.53  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=20.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|.|+.|+|||||.+.++...
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            58999999999999999998754

>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=92.50  E-value=0.081  Score=47.67  Aligned_cols=34  Identities=26%  Similarity=0.564  Sum_probs=25.6

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      |+|.|-||+||||+|..++..+...- ..+.+.+.
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g-~~VlliD~   36 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDY-DKIYAVDG   36 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTC-SCEEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCC-CeEEEEeC
Confidence            56699999999999999999887653 33444433

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=92.47  E-value=0.086  Score=49.86  Aligned_cols=35  Identities=23%  Similarity=0.336  Sum_probs=27.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ..++...|-||+||||+|..++..+...-. .+.+.
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~-rVLlv   48 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGK-KTLVI   48 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTC-CEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCC-cEEEE
Confidence            577888999999999999999988776533 34443

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.46  E-value=0.23  Score=43.75  Aligned_cols=27  Identities=37%  Similarity=0.479  Sum_probs=24.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..|+|.|+.|+||||+++.+++.+...
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999988654

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=92.46  E-value=0.14  Score=48.53  Aligned_cols=36  Identities=28%  Similarity=0.299  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+++.+.|-||+||||+|..++..+...-..+..+
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vlli   50 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLL   50 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEE
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEE
Confidence            357889999999999999999998887653333333

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=92.44  E-value=0.34  Score=52.42  Aligned_cols=23  Identities=43%  Similarity=0.677  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.++.
T Consensus       461 Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          461 ARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999999984

>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=92.43  E-value=0.066  Score=51.18  Aligned_cols=24  Identities=38%  Similarity=0.484  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            368999999999999999999863

>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=92.43  E-value=0.089  Score=44.16  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .--|+|.|.+|+|||||...+..
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEEECCCCccHHHHHHHHhc
Confidence            35689999999999999999875

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=92.41  E-value=0.093  Score=53.99  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=24.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+|.|+|++|+||||+|+.+.+++.
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            457899999999999999999999874

>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=92.40  E-value=0.074  Score=44.18  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .-|+|.|.+|+|||||...+...
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            46889999999999999998863

>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=92.40  E-value=0.074  Score=44.15  Aligned_cols=23  Identities=26%  Similarity=0.390  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            35899999999999999998863

>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=92.39  E-value=0.072  Score=45.61  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -.|+|.|.+|+|||||+..+...
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            46889999999999999999864

>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=92.37  E-value=0.083  Score=46.46  Aligned_cols=25  Identities=28%  Similarity=0.121  Sum_probs=21.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|.|.|.+|+|||||+..+...
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            3567899999999999999999874

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=92.32  E-value=0.092  Score=46.66  Aligned_cols=26  Identities=15%  Similarity=0.116  Sum_probs=23.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..+|+|.|+.|+||||+|+.+++++.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999999764

>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=92.32  E-value=0.1  Score=44.40  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|+|.|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999998764

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=92.28  E-value=0.17  Score=45.38  Aligned_cols=38  Identities=26%  Similarity=0.297  Sum_probs=27.4

Q ss_pred             cEEEEEe-CCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          166 VRMIGIW-GMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       166 ~~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      .++|+|+ +-||+||||+|..++..+.......+.+.+.
T Consensus         4 ~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   42 (245)
T 3ea0_A            4 KRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDI   42 (245)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEEC
T ss_pred             CeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEEC
Confidence            4667766 5699999999999999887763334444444

>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=92.27  E-value=0.077  Score=44.31  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999998864

>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=92.25  E-value=0.079  Score=44.03  Aligned_cols=22  Identities=27%  Similarity=0.444  Sum_probs=19.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|.|.+|+|||||...+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999999863

>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=92.23  E-value=0.079  Score=50.71  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.+..
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            46899999999999999998876

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=92.23  E-value=0.075  Score=50.77  Aligned_cols=24  Identities=42%  Similarity=0.697  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999863

>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=92.21  E-value=0.08  Score=44.11  Aligned_cols=22  Identities=14%  Similarity=0.238  Sum_probs=19.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|.|.+|+|||||...+...
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

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.21  E-value=0.086  Score=44.45  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ....|+|.|.+|+|||||...+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            356789999999999999999876

>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=92.20  E-value=0.08  Score=50.68  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCC
Confidence            468999999999999999999863

>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=92.17  E-value=0.077  Score=44.30  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3588999999999999999863

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.14  E-value=0.082  Score=50.68  Aligned_cols=24  Identities=25%  Similarity=0.439  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            468999999999999999999863

>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=92.12  E-value=0.082  Score=50.93  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcC
Confidence            368999999999999999999863

>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=92.12  E-value=0.083  Score=44.06  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            35889999999999999999864

>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=92.10  E-value=0.085  Score=43.79  Aligned_cols=21  Identities=29%  Similarity=0.200  Sum_probs=19.0

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+|.|.+|+|||||...+...
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

>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=92.08  E-value=0.05  Score=50.88  Aligned_cols=24  Identities=25%  Similarity=0.578  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|+|+.|+|||||++.++.-
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCchHHHHHHHHHcC
Confidence            468999999999999999988763

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.07  E-value=0.075  Score=44.38  Aligned_cols=22  Identities=27%  Similarity=0.605  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3588999999999999999886

>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=92.05  E-value=0.084  Score=45.18  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||+..+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999888764

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=92.05  E-value=0.2  Score=52.23  Aligned_cols=38  Identities=26%  Similarity=0.229  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.+.+...|...    .+..|+||||+|||+.+.++...+.
T Consensus       193 ~Q~~AV~~al~~~----~~~lI~GPPGTGKT~ti~~~I~~l~  230 (646)
T 4b3f_X          193 SQKEAVLFALSQK----ELAIIHGPPGTGKTTTVVEIILQAV  230 (646)
T ss_dssp             HHHHHHHHHHHCS----SEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC----CceEEECCCCCCHHHHHHHHHHHHH
Confidence            4566677777632    4788999999999987766665443

>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=92.02  E-value=0.085  Score=44.56  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|+|.|.+|+|||||...+...
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            3457899999999999999998863

>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=92.02  E-value=0.086  Score=44.40  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            346899999999999999998863

>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=92.02  E-value=0.074  Score=44.94  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..|+|.|.+|+|||||...+...
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            46889999999999999999864

>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=92.01  E-value=0.13  Score=47.99  Aligned_cols=33  Identities=15%  Similarity=0.144  Sum_probs=25.6

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +++|.+.+.     ..+++|.|++|+|||||...+. ..
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            445555554     2589999999999999999998 43

>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=92.00  E-value=0.1  Score=43.08  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++.+|+|+.|.|||||..+++.-+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3688999999999999999887643

>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=92.00  E-value=0.078  Score=45.22  Aligned_cols=24  Identities=29%  Similarity=0.162  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            346889999999999999999864

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=91.98  E-value=0.29  Score=44.88  Aligned_cols=37  Identities=22%  Similarity=0.127  Sum_probs=27.5

Q ss_pred             CCcEEEEEeCC-CCCChhHHHHHHHHHhhcccceeEEE
Q 038919          164 NDVRMIGIWGM-GGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       164 ~~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...++|.|+|. ||+||||+|..++..+...-..+..+
T Consensus        80 ~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLI  117 (271)
T 3bfv_A           80 SAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIV  117 (271)
T ss_dssp             CCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEE
Confidence            34678888865 89999999999998887653334443

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=91.96  E-value=0.16  Score=49.04  Aligned_cols=39  Identities=15%  Similarity=0.211  Sum_probs=28.1

Q ss_pred             CCcEEEEEeC-CCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          164 NDVRMIGIWG-MGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       164 ~~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      ...++|+|+| -||+||||+|..++..+...-. .+.+.+.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~-rVlliD~  180 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGK-KVFYLNI  180 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTC-CEEEEEC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCC-CEEEEEC
Confidence            3467888875 8999999999999988766533 3444443

>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=91.95  E-value=0.088  Score=50.65  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.++-
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999986

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=91.94  E-value=0.22  Score=53.70  Aligned_cols=24  Identities=25%  Similarity=0.148  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...+++|+|+.|.|||||.+.++.
T Consensus       672 ~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          672 SERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             SCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCchHHHHHHHHH
Confidence            357999999999999999998764

>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=91.89  E-value=0.092  Score=43.72  Aligned_cols=23  Identities=17%  Similarity=0.177  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            45889999999999999998863

>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=91.88  E-value=0.09  Score=45.17  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|+|.|.+|+|||||...+...
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            4567999999999999999998763

>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=91.88  E-value=0.21  Score=43.16  Aligned_cols=28  Identities=14%  Similarity=-0.218  Sum_probs=24.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+..++|+.|.||||.+...+++...+
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            4799999999999999999999887544

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=91.85  E-value=0.18  Score=46.00  Aligned_cols=34  Identities=15%  Similarity=0.138  Sum_probs=25.0

Q ss_pred             HHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          156 KFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       156 ~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+.+.........|+|.|.+|+|||||...+...
T Consensus        26 ~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           26 FGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3333333334567899999999999999999863

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=91.85  E-value=0.25  Score=46.01  Aligned_cols=37  Identities=19%  Similarity=0.257  Sum_probs=27.5

Q ss_pred             CCcEEEEEeCC-CCCChhHHHHHHHHHhhcccceeEEE
Q 038919          164 NDVRMIGIWGM-GGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       164 ~~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...++|.|+|. ||+||||+|..++..+...-..++.+
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLI  139 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFI  139 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEE
Confidence            34578888886 89999999999998877653333333

>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=91.84  E-value=0.087  Score=50.74  Aligned_cols=24  Identities=33%  Similarity=0.447  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcC
Confidence            368999999999999999999863

>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=91.84  E-value=0.085  Score=44.00  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            45889999999999999998853

>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=91.84  E-value=0.087  Score=50.77  Aligned_cols=27  Identities=19%  Similarity=0.327  Sum_probs=23.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...++|+|+.|+|||||++.++..+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            468999999999999999999886543

>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=91.81  E-value=0.093  Score=44.97  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            46889999999999999998864

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=91.81  E-value=0.036  Score=57.13  Aligned_cols=48  Identities=19%  Similarity=0.152  Sum_probs=33.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCC---------CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          143 KELVGIESRLEKLKFLMGAGCN---------DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++|.+...+.+...+..+..         +..-+.++|++|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            6789998766655444442210         00158999999999999999998754

>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=91.80  E-value=0.35  Score=47.88  Aligned_cols=24  Identities=29%  Similarity=0.196  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCCChhHHH-HHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLA-RVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa-~~~~~~  189 (483)
                      .+.++|.|..|+|||+|+ ..++++
T Consensus       162 GQR~~Ifg~~g~GKT~l~l~~I~n~  186 (513)
T 3oaa_A          162 GQRELIIGDRQTGKTALAIDAIINQ  186 (513)
T ss_dssp             TCBCEEEESSSSSHHHHHHHHHHTT
T ss_pred             CCEEEeecCCCCCcchHHHHHHHhh
Confidence            467899999999999997 456664

>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=91.80  E-value=0.077  Score=44.16  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||...+..
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            478999999999999998864

>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=91.78  E-value=0.12  Score=43.48  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...-|+|.|.+|+|||||...+...
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3567899999999999999998874

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=91.77  E-value=0.28  Score=47.72  Aligned_cols=28  Identities=21%  Similarity=0.159  Sum_probs=23.0

Q ss_pred             CcEEEEEe-CCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIW-GMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..++|+|+ |-||+||||+|..++..+..
T Consensus       107 ~~~vIav~s~KGGvGKTT~a~nLA~~La~  135 (398)
T 3ez2_A          107 EAYVIFISNLKGGVSKTVSTVSLAHAMRA  135 (398)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            45677765 88999999999999988763

>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=91.76  E-value=0.33  Score=48.14  Aligned_cols=25  Identities=24%  Similarity=0.116  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHH-HHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLAR-VVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~-~~~~~~  190 (483)
                      .+.++|.|.+|+|||+||. .+++..
T Consensus       175 GQR~~I~g~~g~GKT~Lal~~I~~~~  200 (515)
T 2r9v_A          175 GQRELIIGDRQTGKTAIAIDTIINQK  200 (515)
T ss_dssp             TCBEEEEEETTSSHHHHHHHHHHTTT
T ss_pred             CCEEEEEcCCCCCccHHHHHHHHHhh
Confidence            3678999999999999964 666654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.76  E-value=0.093  Score=44.22  Aligned_cols=24  Identities=29%  Similarity=0.291  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            345889999999999999998853

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.74  E-value=0.11  Score=45.94  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=24.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ...|+|.|+.|+||||++..+++.+..
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            468999999999999999999998875

>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=91.71  E-value=0.076  Score=45.30  Aligned_cols=21  Identities=24%  Similarity=0.145  Sum_probs=19.3

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.|+|.+|+|||++|.+++..
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            689999999999999999865

>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=91.71  E-value=0.098  Score=44.03  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            456899999999999999999864

>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=91.70  E-value=0.099  Score=43.66  Aligned_cols=24  Identities=33%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
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            456899999999999999999763

>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=91.69  E-value=0.25  Score=50.55  Aligned_cols=27  Identities=33%  Similarity=0.441  Sum_probs=23.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +++.|+|.+|+||||++..+...+...
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~  231 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESL  231 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            689999999999999999998876654

>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=91.64  E-value=0.09  Score=45.21  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..|+|.|.+|+|||||...+...
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            46899999999999999998863

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=91.63  E-value=0.14  Score=44.39  Aligned_cols=26  Identities=12%  Similarity=0.073  Sum_probs=22.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+|+|+|++|+||+++|..+.+++
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            35799999999999999999887755

>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=91.57  E-value=0.1  Score=44.99  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999875

>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=91.55  E-value=0.073  Score=50.74  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcC
Confidence            368999999999999999999864

>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=91.55  E-value=0.1  Score=44.23  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456899999999999999999864

>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=91.54  E-value=0.1  Score=44.56  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            456899999999999999999863

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.54  E-value=0.11  Score=44.60  Aligned_cols=24  Identities=17%  Similarity=0.386  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
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            457899999999999999998864

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=91.54  E-value=0.2  Score=45.85  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .....|++.|.+|+|||||...+...
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            34567899999999999999998863

>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=91.51  E-value=0.099  Score=44.87  Aligned_cols=27  Identities=30%  Similarity=0.316  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .--|+|.|.+|+|||||.+.+......
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~~   40 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVPE   40 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhccc
Confidence            346899999999999999766654433

>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=91.50  E-value=0.11  Score=44.70  Aligned_cols=24  Identities=29%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            456899999999999999998863

>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=91.49  E-value=0.11  Score=44.34  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            35889999999999999999863

>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=91.48  E-value=0.079  Score=44.77  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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

>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=91.41  E-value=0.11  Score=44.10  Aligned_cols=22  Identities=27%  Similarity=0.199  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4588999999999999999885

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=91.36  E-value=0.15  Score=47.41  Aligned_cols=40  Identities=28%  Similarity=0.327  Sum_probs=27.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEe---CCCCCChhHHHHHHHHHhhcc
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIW---GMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~---G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+.++.+.+...   .++++|+   +-||+||||+|..++..+...
T Consensus        22 ~~~~~~r~~~~~---~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~   64 (298)
T 2oze_A           22 ILEELRRILSNK---NEAIVILNNYFKGGVGKSKLSTMFAYLTDKL   64 (298)
T ss_dssp             HHHHHHHHHHHH---CSCEEEEECCSSSSSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCC---CcEEEEEeccCCCCchHHHHHHHHHHHHHhC
Confidence            344455544422   2456666   499999999999999877654

>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=91.33  E-value=0.11  Score=43.86  Aligned_cols=23  Identities=26%  Similarity=0.101  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            45889999999999999988763

>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=91.32  E-value=0.11  Score=44.00  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            356899999999999999998863

>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=91.28  E-value=0.11  Score=43.80  Aligned_cols=23  Identities=22%  Similarity=0.198  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            46889999999999999998863

>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=91.27  E-value=0.1  Score=43.85  Aligned_cols=22  Identities=23%  Similarity=0.197  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4588999999999999999885

>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=91.27  E-value=0.096  Score=44.69  Aligned_cols=22  Identities=27%  Similarity=0.228  Sum_probs=19.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|.|.+|+|||||...+...
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            4789999999999999998863

>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=91.25  E-value=0.1  Score=44.30  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999998864

>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=91.25  E-value=0.11  Score=44.68  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            356889999999999999998864

>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=91.25  E-value=0.086  Score=45.63  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      ..-|+|.|.+|+|||||...+.
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999999885

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.22  E-value=0.12  Score=43.58  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...-|+|.|.+|+|||||...+..
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            345689999999999999999875

>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=91.22  E-value=0.12  Score=43.65  Aligned_cols=24  Identities=29%  Similarity=0.232  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            346899999999999999998863

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.15  E-value=0.15  Score=48.69  Aligned_cols=27  Identities=33%  Similarity=0.479  Sum_probs=24.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+++|.|+.|+|||||.+.++.....
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            478999999999999999999987654

>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=91.11  E-value=0.11  Score=50.30  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            468999999999999999998863

>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=91.11  E-value=0.5  Score=53.48  Aligned_cols=22  Identities=23%  Similarity=0.452  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..|+|+|+.|+|||||+..+..
T Consensus      1106 e~vaIVG~SGsGKSTL~~lL~r 1127 (1321)
T 4f4c_A         1106 QTLALVGPSGCGKSTVVALLER 1127 (1321)
T ss_dssp             CEEEEECSTTSSTTSHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            3699999999999999999876

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.07  E-value=0.12  Score=44.51  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999999874

>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=91.06  E-value=0.11  Score=43.91  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...|+|.|.+|+|||||...+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45789999999999999999985

>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=91.06  E-value=0.07  Score=51.03  Aligned_cols=24  Identities=42%  Similarity=0.628  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999863

>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=91.06  E-value=0.12  Score=44.72  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            456899999999999999998863

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=91.04  E-value=0.24  Score=46.82  Aligned_cols=29  Identities=31%  Similarity=0.359  Sum_probs=25.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...++.+.|-||+||||+|..++..+...
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~   46 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKV   46 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTS
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHC
Confidence            35678889999999999999999888765

>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=91.04  E-value=0.13  Score=44.11  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            46899999999999999999863

>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=91.04  E-value=0.12  Score=44.80  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456899999999999999998864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.02  E-value=0.11  Score=50.02  Aligned_cols=35  Identities=31%  Similarity=0.415  Sum_probs=26.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEe
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLAD  202 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~  202 (483)
                      ..++|+|+.|+|||||++.++..+... .+.+.+.+
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~~-~g~I~ie~  210 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPFD-QRLITIED  210 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCTT-SCEEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCCC-ceEEEECC
Confidence            589999999999999999998865442 34455543

>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=91.00  E-value=0.074  Score=46.42  Aligned_cols=24  Identities=13%  Similarity=0.149  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ....++|.|.+|+|||||...+..
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            346899999999999999988764

>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=90.95  E-value=0.12  Score=45.09  Aligned_cols=24  Identities=33%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            456899999999999999998864

>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=90.95  E-value=0.13  Score=45.09  Aligned_cols=24  Identities=25%  Similarity=0.156  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
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            456899999999999999999864

>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=90.94  E-value=0.48  Score=47.51  Aligned_cols=24  Identities=25%  Similarity=0.173  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+.++|.|..|+|||+|+.++++.
T Consensus       227 Gqr~~I~g~~g~GKT~L~~~ia~~  250 (588)
T 3mfy_A          227 GGTAAIPGPAGSGKTVTQHQLAKW  250 (588)
T ss_dssp             TCEEEECSCCSHHHHHHHHHHHHH
T ss_pred             CCeEEeecCCCCCHHHHHHHHHhc
Confidence            468999999999999999998775

>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=90.93  E-value=0.12  Score=44.26  Aligned_cols=23  Identities=26%  Similarity=0.144  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            45899999999999999998864

>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=90.91  E-value=0.12  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.162  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||+..+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999999874

>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=90.91  E-value=0.13  Score=43.97  Aligned_cols=24  Identities=21%  Similarity=0.144  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            456899999999999999998864

>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=90.91  E-value=0.13  Score=44.07  Aligned_cols=23  Identities=30%  Similarity=0.205  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      --|+|.|.+|+|||||...+...
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            45889999999999999998863

>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=90.90  E-value=0.13  Score=44.19  Aligned_cols=24  Identities=29%  Similarity=0.238  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            346889999999999999998874

>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=90.88  E-value=0.14  Score=44.57  Aligned_cols=24  Identities=25%  Similarity=0.142  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            356889999999999999988863

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=90.83  E-value=0.22  Score=43.97  Aligned_cols=33  Identities=12%  Similarity=-0.031  Sum_probs=24.2

Q ss_pred             EEEEEeC-CCCCChhHHHHHHHHHhhcccceeEE
Q 038919          167 RMIGIWG-MGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       167 ~~v~I~G-~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      +++.|+| -||+||||++..++..+...-..+..
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll   35 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAG   35 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEE
Confidence            4677766 58999999999999887665333333

>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=90.82  E-value=0.13  Score=45.34  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .--|+|.|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999998873

>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=90.81  E-value=0.097  Score=45.38  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...|+|.|.+|+|||||...+..
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34688999999999999998874

>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=90.79  E-value=0.14  Score=43.87  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            356899999999999999998763

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=90.79  E-value=0.15  Score=44.71  Aligned_cols=23  Identities=39%  Similarity=0.439  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .-.|+|+|..|+||||+++.+..
T Consensus         9 ~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            9 MYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998876

>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=90.77  E-value=0.12  Score=44.35  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            346899999999999999999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=90.77  E-value=0.14  Score=44.00  Aligned_cols=24  Identities=25%  Similarity=0.238  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
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            456899999999999999999863

>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=90.75  E-value=0.14  Score=44.30  Aligned_cols=24  Identities=17%  Similarity=0.167  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
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            467899999999999999998763

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=90.72  E-value=0.12  Score=44.67  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..-|+|.|.+|+|||||...+...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            456899999999999999999864

>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=90.68  E-value=0.12  Score=44.66  Aligned_cols=24  Identities=29%  Similarity=0.177  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .--|+|.|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999998863

>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=90.65  E-value=0.14  Score=45.21  Aligned_cols=21  Identities=24%  Similarity=0.257  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||+|+..+..
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            478999999999999999875

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=90.62  E-value=0.44  Score=44.01  Aligned_cols=50  Identities=12%  Similarity=0.104  Sum_probs=31.7

Q ss_pred             HHHHHHHHhhc--CCCCcEEEEEeC-CCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          151 RLEKLKFLMGA--GCNDVRMIGIWG-MGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       151 ~l~~l~~~L~~--~~~~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .+..|...|..  .....++|.|+| -||+||||+|..++..+...-..++.+
T Consensus        75 a~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLI  127 (286)
T 3la6_A           75 AIRSLRTSLHFAMMQAQNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLI  127 (286)
T ss_dssp             HHHHHHHHHHHHSTTTTCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             HHHHHHHHHhhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            34444443332  223456777765 589999999999999887653333443

>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=90.61  E-value=0.15  Score=47.67  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...|+|.|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            468999999999999999999864

>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=90.59  E-value=0.14  Score=43.74  Aligned_cols=23  Identities=35%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -.|+|.|.+|+|||||...+...
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            46899999999999999999864

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=90.57  E-value=0.22  Score=51.26  Aligned_cols=29  Identities=21%  Similarity=0.255  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ..+++.+.|.||+||||+|..++..+...
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~   35 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQ   35 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHC
Confidence            35788999999999999999999877655

>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=90.55  E-value=0.16  Score=45.40  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=21.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ....|+|.|.+|+|||||...+...
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            3567999999999999999998863

>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=90.50  E-value=0.36  Score=54.63  Aligned_cols=24  Identities=21%  Similarity=0.468  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..++|+|+.|+|||||++.+...+
T Consensus       445 ~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          445 QTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             CEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             cEEEEEecCCCcHHHHHHHhcccc
Confidence            479999999999999999887643

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.48  E-value=0.16  Score=43.62  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ....|+|.|.+|+|||||...+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            456799999999999999999875

>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=90.45  E-value=0.14  Score=44.15  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .--|+|.|.+|+|||||...+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45689999999999999999886

---

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	483
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-42
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	1e-12
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	7e-10
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	0.002

>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 =  149 bits (378), Expect = 2e-42
 Identities = 41/258 (15%), Positives = 77/258 (29%), Gaps = 19/258 (7%)

Query: 145 LVGIESRLEKL-KFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYD----LISHEFDGSSF 199
               E  ++++ K L      D   + + G  G GK+ +A         LI   +D   +
Sbjct: 22  CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVW 81

Query: 200 LADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYD-----GINMIGRRLRQKKVLLV 254
           L        K    +     L+        N     +         +    + +   L V
Sbjct: 82  L-KDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV 140

Query: 255 IDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLKLHRVE-EVFKLEALTYDEAFQLF 313
            DDV   E        R       R ++TTRD  +        E  ++ +L  DE +   
Sbjct: 141 FDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFL 194

Query: 314 CLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKREPEN 373
                      +E   +    +  + G P  L +       +  ++      +L+     
Sbjct: 195 EAYGMPMPVGEKEE-DVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLV 253

Query: 374 EILDILQISFDGLKEAEK 391
            +  I   S+  L  A +
Sbjct: 254 GVECITPYSYKSLAMALQ 271

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.6 bits (154), Expect = 1e-12
 Identities = 25/84 (29%), Positives = 36/84 (42%)

Query: 1   TFISHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLD 60
              + L   L  +G+ +   ++    G SI  N++  IE+S  SI VLS N+  S WC  
Sbjct: 26  WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSEWCHY 85

Query: 61  ELVKIVEYKNREDQIFPIFYDVEP 84
           EL         E     I   +EP
Sbjct: 86  ELYFAHHNLFHEGSNSLILILLEP 109

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.5 bits (133), Expect = 7e-10
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 4/87 (4%)

Query: 2   FISHLYTAL--NDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCL 59
             + +   L   +    +    +    G  I  N++ +IE+S  ++ VLS N+  S WC 
Sbjct: 20  VENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWCK 79

Query: 60  DELVKIVEYKNRE--DQIFPIFYDVEP 84
            EL         E  D    I  +   
Sbjct: 80  YELDFSHFRLFDENNDAAILILLEPIE 106

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 37.2 bits (85), Expect = 0.002
 Identities = 33/214 (15%), Positives = 66/214 (30%), Gaps = 20/214 (9%)

Query: 142 LKELVGIESRLEKLKFLMGAGCNDVRMIG---IWGMGGLGKTTLARVVYDLISHEFDGSS 198
           L E +G E   +KL+  + A       +    ++G  GLGKTTLA V+   +      +S
Sbjct: 8   LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTS 67

Query: 199 FLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDV 258
                       G  I     L + L    +       D I+ + R+  ++ +   ++D 
Sbjct: 68  ------------GPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQ-AEEHLYPAMEDF 114

Query: 259 AHVEQLRRLAGKRDWFGPGSRIIIT----TRDEHLLKLHRVEEVFKLEALTYDEAFQLFC 314
                + +    R       R  +             L     + +       E      
Sbjct: 115 VMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGV 174

Query: 315 LKAFETQKPREEYVHLSQLVVNYAGGLPLALKVL 348
           ++       R       ++     G + +A ++ 
Sbjct: 175 MRDARLLGVRITEEAALEIGRRSRGTMRVAKRLF 208

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	483
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.47
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.39
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.2
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.09
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.01
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.9
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.89
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.84
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.82
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.81
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.77
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.76
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.71
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.7
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.68
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.66
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.61
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.6
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.58
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.48
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.48
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.44
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.43
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.38
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.58
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.5
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.5
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.46
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.43
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.38
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.34
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.32
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.27
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.26
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.21
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.2
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.18
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.17
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.12
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.12
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.11
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.1
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.09
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.02
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.02
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.0
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.99
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.98
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.96
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.96
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.95
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.87
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.87
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.87
d1okkd2	207	GTPase domain of the signal recognition particle r	96.86
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.8
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.79
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.77
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.76
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.75
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.73
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.69
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.68
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.63
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.62
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.57
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.56
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.55
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.5
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.47
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.44
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.4
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.34
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.32
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.29
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.28
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.21
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.19
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.18
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.16
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.16
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.11
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.11
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.09
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.07
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.03
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.98
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.98
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.95
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.94
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.93
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.88
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.84
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.81
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.79
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.76
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.75
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.72
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.7
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.7
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.61
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.53
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.49
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.46
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.38
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.33
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.32
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.13
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.13
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.08
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.07
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.04
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.04
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.98
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.82
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.79
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.75
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.57
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.34
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.3
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.29
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.28
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.1
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.06
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.05
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.04
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.01
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.0
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.93
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.87
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.82
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.79
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.78
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.74
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.68
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.67
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.61
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.6
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.58
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.56
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.51
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.48
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.47
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.44
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.4
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.39
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.31
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.22
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.21
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.16
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.15
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.13
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.05
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.05
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.02
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.02
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.02
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.01
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.92
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.9
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.82
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.82
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.78
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.72
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.67
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.66
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.63
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.61
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.61
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.61
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.59
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.57
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.56
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.49
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.46
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	92.45
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.45
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.44
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.43
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.41
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.39
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.38
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.37
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.37
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.33
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.32
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.3
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.28
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.28
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.19
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.14
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.11
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.1
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.02
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.98
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.93
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	91.88
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.83
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.82
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.8
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.8
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.76
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.74
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.61
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.53
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.47
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.47
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.44
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	91.37
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.32
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.27
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.16
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.07
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.06
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.91
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.77
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.5
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.35
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.35
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.13
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.09
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.02
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.0
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.65
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.57
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.28
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	89.17
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	88.04
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	86.53
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.27
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	86.24
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	86.12
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	85.84
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.43
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	84.68
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	84.55
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	84.44
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.17
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	83.87
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	83.65
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.93
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	82.84
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	82.73
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	82.58
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	81.56
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	80.58
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	80.09

>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=9.6e-38  Score=292.32  Aligned_cols=246  Identities=15%  Similarity=0.121  Sum_probs=190.5

Q ss_pred             HhhhchhHHHHHHHHHhhc-CCCCcEEEEEeCCCCCChhHHHHHHHHH----hhcccceeEEEEecccccccCCcHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA-GCNDVRMIGIWGMGGLGKTTLARVVYDL----ISHEFDGSSFLADVKEKYDKEGSVISLQ  217 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~----~~~~f~~~~~~~~~~~~~~~~~~~~~l~  217 (483)
                      +.++||+.+++++.++|.. .+.+.++|+|+|||||||||||++++++    ...+|++.+|+. +.+......+ ....
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~-vs~~~~~~~l-~~~~   97 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK-DSGTAPKSTF-DLFT   97 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE-CCCCSTTHHH-HHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEE-ecCCCCHHHH-HHHH
Confidence            4688999999999998865 4445789999999999999999999986    344577777765 4333332222 2222


Q ss_pred             HHHHHHHhcccCCC------ccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcCCHhHHh
Q 038919          218 KQLISDLLKLADNS------IRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTRDEHLLK  291 (483)
Q Consensus       218 ~~ll~~~~~~~~~~------~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~  291 (483)
                      ..++..+.......      ..........+.+.+.++++|+||||||+.++++.+..      .+++||||||++.++.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~  171 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGG
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHH
Confidence            33333322221111      11222234456777889999999999999999988753      5899999999999887


Q ss_pred             hCCCc-ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHHHHHHhCCCCHHHHHHHHHHhccC
Q 038919          292 LHRVE-EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKVLGSFLFGRPVDEWTSTLERLKRE  370 (483)
Q Consensus       292 ~~~~~-~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~la~~l~~~~~~~~~~~l~~l~~~  370 (483)
                      .+... ..|+|++|+.+||++||+.+++....+ +..++++++|+++|+|+||||+.+|+.++.++...|.....++...
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~  250 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESR  250 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcC
Confidence            76544 679999999999999999998866544 3567889999999999999999999999999999999999989876


Q ss_pred             CCccHHHHHHHhhcCCcHHHHHHHhhh
Q 038919          371 PENEILDILQISFDGLKEAEKEIFLDV  397 (483)
Q Consensus       371 ~~~~v~~~l~~s~~~L~~~~k~~l~~l  397 (483)
                      ....+..++..||+.||++.|.||.++
T Consensus       251 ~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         251 GLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             CSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            677889999999999999999999754

>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=99.47  E-value=1.3e-12  Score=120.61  Aligned_cols=193  Identities=18%  Similarity=0.244  Sum_probs=112.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc-cCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD-KEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~l~~~ll  221 (483)
                      ..||||+.+++++.+..      .+.+.|+|++|+|||+|+++++++....+   .|+ +...... .......+...+.
T Consensus        12 ~~f~GR~~el~~l~~~~------~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i-~~~~~~~~~~~~~~~~~~~~~   81 (283)
T d2fnaa2          12 KDFFDREKEIEKLKGLR------APITLVLGLRRTGKSSIIKIGINELNLPY---IYL-DLRKFEERNYISYKDFLLELQ   81 (283)
T ss_dssp             GGSCCCHHHHHHHHHTC------SSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEE-EGGGGTTCSCCCHHHHHHHHH
T ss_pred             hhCCChHHHHHHHHhcc------CCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEE-EeccccccccccHHHHHHHHH
Confidence            68999999999988642      36889999999999999999998765442   222 2322222 2222233333332


Q ss_pred             HHHhcc---c-------C---------------CCccchhhhHHHHHHH--HhcCceEEEEcCCCCH---------HHHH
Q 038919          222 SDLLKL---A-------D---------------NSIRNVYDGINMIGRR--LRQKKVLLVIDDVAHV---------EQLR  265 (483)
Q Consensus       222 ~~~~~~---~-------~---------------~~~~~~~~~~~~l~~~--l~~~~~LlVlDdv~~~---------~~~~  265 (483)
                      ......   .       .               ............+...  ..++++++|+|+++..         ..+.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~  161 (283)
T d2fnaa2          82 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALA  161 (283)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHH
T ss_pred             HHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHH
Confidence            221100   0       0               0000111122222222  3468899999988432         2333


Q ss_pred             HHhcCCCCCCCCcEEEEEcCCHhHHhhC------------CCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHH
Q 038919          266 RLAGKRDWFGPGSRIIITTRDEHLLKLH------------RVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQL  333 (483)
Q Consensus       266 ~l~~~~~~~~~~~~iliTtR~~~~~~~~------------~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~  333 (483)
                      .+...    ......+++++........            .....+.|++|+.+++.+++.+.+.......+.    .++
T Consensus       162 ~~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~  233 (283)
T d2fnaa2         162 YAYDN----LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEV  233 (283)
T ss_dssp             HHHHH----CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHH
T ss_pred             HHHHh----hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----HHH
Confidence            33222    2345555555543322111            123468899999999999998765433222222    578


Q ss_pred             HHHHhCCChHHHHHHHHHhC
Q 038919          334 VVNYAGGLPLALKVLGSFLF  353 (483)
Q Consensus       334 i~~~~~G~PLal~~la~~l~  353 (483)
                      +++.++|+|.+|..++..+.
T Consensus       234 i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         234 VYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHH
Confidence            99999999999999987653

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=4.8e-14  Score=118.75  Aligned_cols=82  Identities=28%  Similarity=0.457  Sum_probs=73.0

Q ss_pred             ch-hhHHHHHHhCCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHHhcCC-c-eEee
Q 038919            2 FI-SHLYTALNDKGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYKNRED-Q-IFPI   78 (483)
Q Consensus         2 f~-~~L~~~L~~~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~~~~~-~-v~Pv   78 (483)
                      |+ .+|...|+.+|+++|+|++++.+|+.+.++|.++|++|+.+|+|+|++|..|.||..|+..++.+....+ . +|||
T Consensus        26 ~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~w~~~E~~~a~~~~~~~~~~~lIpV  105 (161)
T d1fyva_          26 WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILI  105 (161)
T ss_dssp             HHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHTSHHHHHHTTSCCCSCSSCSSEEEE
T ss_pred             HHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccChHHHHHHHHHHHHHHHcCCCceeEE
Confidence            44 5799999999999999999999999999999999999999999999999999999999998876543333 4 9999


Q ss_pred             eeccc
Q 038919           79 FYDVE   83 (483)
Q Consensus        79 f~~v~   83 (483)
                      +++..
T Consensus       106 ~l~~~  110 (161)
T d1fyva_         106 LLEPI  110 (161)
T ss_dssp             ESSCC
T ss_pred             EEecC
Confidence            98743

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=5e-13  Score=110.90  Aligned_cols=80  Identities=21%  Similarity=0.326  Sum_probs=69.3

Q ss_pred             hhHHHHHHh--CCCcEeecCCCCCCCCCCchHHHHHhhhcceEEEEeccccccchhhHHHHHHHHHHH-hcCCc-eEeee
Q 038919            4 SHLYTALND--KGIYVFRDDKQLEKGGSISPNLLKAIEESRISIIVLSRNYASSTWCLDELVKIVEYK-NREDQ-IFPIF   79 (483)
Q Consensus         4 ~~L~~~L~~--~gi~~f~d~~~~~~g~~~~~~l~~ai~~s~~~v~v~s~~y~~s~~cl~El~~~~~~~-~~~~~-v~Pvf   79 (483)
                      .+|...|++  .|+++|+|++++.+|+.+..+|.++|+.|+.+|+|+||+|..|.||..|+..++... +.++. +|||+
T Consensus        22 ~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~wc~~E~~~a~~~~~~~~~~~iIpV~  101 (149)
T d1fyxa_          22 NLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWCKYELDFSHFRLFDENNDAAILIL  101 (149)
T ss_dssp             THHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHHHHSCCSCCTTCGGGTTCCEEEE
T ss_pred             HHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccchHHHHHHHHHHHHHcCCceEEEEE
Confidence            468899976  499999999999999999999999999999999999999999999999998665433 23445 99999


Q ss_pred             eccc
Q 038919           80 YDVE   83 (483)
Q Consensus        80 ~~v~   83 (483)
                      ++..
T Consensus       102 l~~~  105 (149)
T d1fyxa_         102 LEPI  105 (149)
T ss_dssp             SSCC
T ss_pred             eccC
Confidence            9743

>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=99.09  E-value=4.8e-09  Score=95.73  Aligned_cols=171  Identities=18%  Similarity=0.215  Sum_probs=102.6

Q ss_pred             HhhhchhHHHHHHHHHhhc----CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA----GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQK  218 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~  218 (483)
                      ..++||+.+++.+.++|..    .....+.+.|+|++|+|||++|+.+++.+.......+.+.+...    .........
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~----~~~~~~~~~   91 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI----YRNFTAIIG   91 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT----CCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchh----hhhhhhhhh
Confidence            3589999999999998863    23346789999999999999999999998766555444442221    222255555


Q ss_pred             HHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCH-----HHHHHHhcCCCCC-CCCcEEEEEcCCHhHH
Q 038919          219 QLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHV-----EQLRRLAGKRDWF-GPGSRIIITTRDEHLL  290 (483)
Q Consensus       219 ~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~-----~~~~~l~~~~~~~-~~~~~iliTtR~~~~~  290 (483)
                      .......................+...+.  ....++++|++++.     .....+....... .....+|.++......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            55555433333333444445554554443  35667778877542     1222222221111 2234455555543332


Q ss_pred             hhC-------CCcceEecCCCChHHHHHHHHHhh
Q 038919          291 KLH-------RVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       291 ~~~-------~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ...       .....+.+++++.++..+++..++
T Consensus       172 ~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         172 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            211       122457899999999999998765

>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=99.01  E-value=4.6e-09  Score=94.41  Aligned_cols=152  Identities=16%  Similarity=0.165  Sum_probs=99.1

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc------cceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE------FDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +..+||+.+++++...|....  ..-+.++|++|+|||+++..+++++...      ....+|..++.....        
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~lia--------   87 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA--------   87 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C--------
T ss_pred             CcccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhc--------
Confidence            458999999999999997532  3467799999999999999999986542      223455544332111        


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH-hcCceEEEEcCCCCH----------HHHHHHh-cCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL-RQKKVLLVIDDVAHV----------EQLRRLA-GKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------~~~~~l~-~~~~~~~~~~~iliTt  284 (483)
                                 ........++....+.+.+ ...++++++|++...          ..+..++ +.+.  ....++|.||
T Consensus        88 -----------g~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgat  154 (268)
T d1r6bx2          88 -----------GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  154 (268)
T ss_dssp             -----------CCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEE
T ss_pred             -----------cCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeC
Confidence                       1112333444444444444 356789999998432          2344444 4444  4567888888


Q ss_pred             CCHhHHhhCC-------CcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLLKLHR-------VEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      ..+.......       ..+.+.|++++.+++.+++....
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            8665543222       23578999999999999997644

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.90  E-value=1.1e-08  Score=86.66  Aligned_cols=145  Identities=11%  Similarity=0.127  Sum_probs=90.9

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc------cceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE------FDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      +..+||+.+++++...|....  ..-+.++|++|+|||+++..+++++...      -...+|..++...-...      
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~------   93 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGA------   93 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTT------
T ss_pred             CCCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccC------
Confidence            468999999999999998532  3457899999999999999999987542      23445555433211111      


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHH-h-cCceEEEEcCCCCH-------------HHHHHHhcCCCCCCCCcEEE
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRL-R-QKKVLLVIDDVAHV-------------EQLRRLAGKRDWFGPGSRII  281 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l-~-~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~~~~~~il  281 (483)
                                   ......++....+.+.+ . ..+++|++|++...             ..+...+.     ....++|
T Consensus        94 -------------~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-----rg~l~~I  155 (195)
T d1jbka_          94 -------------KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-----RGELHCV  155 (195)
T ss_dssp             -------------CSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-----TTSCCEE
T ss_pred             -------------CccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-----CCCceEE
Confidence                         11222333333333333 3 35799999999432             22333322     2456788


Q ss_pred             EEcCCHhHHhhC-------CCcceEecCCCChHHHHHHH
Q 038919          282 ITTRDEHLLKLH-------RVEEVFKLEALTYDEAFQLF  313 (483)
Q Consensus       282 iTtR~~~~~~~~-------~~~~~~~l~~L~~~ea~~L~  313 (483)
                      .||..+......       ...+.+.|++++.+++..++
T Consensus       156 gatT~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         156 GATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             ecCCHHHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            877755543322       23467899999999987654

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.89  E-value=3.5e-08  Score=90.31  Aligned_cols=192  Identities=16%  Similarity=0.139  Sum_probs=102.5

Q ss_pred             HhhhchhHHHHHHHHHhhc----CC---CCcEEEEEeCCCCCChhHHHHHHHHHhhccc-----ceeEEEEecccccccC
Q 038919          143 KELVGIESRLEKLKFLMGA----GC---NDVRMIGIWGMGGLGKTTLARVVYDLISHEF-----DGSSFLADVKEKYDKE  210 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~----~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~  210 (483)
                      +.++||+.++++|.+.+..    +.   +...++.|+|++|+|||++++.+++.+....     ...+...+.   .. .
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~---~~-~   91 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA---FN-A   91 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEG---GG-C
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecc---cc-c
Confidence            5799999999999886531    11   1133567789999999999999998764321     222222222   11 2


Q ss_pred             CcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHH--hcCceEEEEcCCCCH--------HHHHHH------hcCCCCC
Q 038919          211 GSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRL--RQKKVLLVIDDVAHV--------EQLRRL------AGKRDWF  274 (483)
Q Consensus       211 ~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~--------~~~~~l------~~~~~~~  274 (483)
                      ...............................+....  .+...++++|.++..        +....+      .......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~  171 (287)
T d1w5sa2          92 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  171 (287)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcc
Confidence            222444444444443333333333444444444443  356778888887432        222222      1121111


Q ss_pred             CCCcEEEEEcCCHhHH--------hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHh
Q 038919          275 GPGSRIIITTRDEHLL--------KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA  338 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~--------~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  338 (483)
                      ..-..|++++......        ........+.+++++.++..+++..++-.......-..+..+.|++++
T Consensus       172 ~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         172 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             cceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHH
Confidence            2223344444433211        111234578899999999999998776321111112234556666655

>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=98.84  E-value=5.7e-08  Score=86.71  Aligned_cols=188  Identities=19%  Similarity=0.146  Sum_probs=110.0

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      ..++|.+..++.|..++..+. -++.+.|+|++|+||||+|+.+++.+......         ....... ......+..
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~---------~~~~~~~-~~~~~~i~~   80 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGI---------TATPCGV-CDNCREIEQ   80 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCS---------CSSCCSC-SHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCcccc---------ccCcccc-chHHHHHHc
Confidence            679999999999999997542 24568899999999999999999876443210         0000111 111111111


Q ss_pred             HH----hcccCCCccchhhhHHHHHHHHh--------cCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh
Q 038919          223 DL----LKLADNSIRNVYDGINMIGRRLR--------QKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH  288 (483)
Q Consensus       223 ~~----~~~~~~~~~~~~~~~~~l~~~l~--------~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~  288 (483)
                      ..    ..........    +..+++.+.        ++.-++|||+++..  +....|+..+...+.++++|++|.+..
T Consensus        81 ~~~~~~~~~~~~~~~~----i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          81 GRFVDLIEIDAASRTK----VEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             TCCTTEEEEETTCSSS----HHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             CCCCeEEEecchhcCC----HHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence            10    0000000111    122222221        35568999999753  333444444333356778887777543


Q ss_pred             HH-h-hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH-HHHH
Q 038919          289 LL-K-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL-ALKV  347 (483)
Q Consensus       289 ~~-~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~  347 (483)
                      -. . .......+.+.+++.++-.+.+...+......  ...+.+..|+..++|.+- |+..
T Consensus       157 ~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~--~~~~~l~~i~~~s~Gd~R~ain~  216 (239)
T d1njfa_         157 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSL  216 (239)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             ccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            21 1 12344678999999999999888776433322  233567889999999985 4443

>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=98.82  E-value=2.9e-08  Score=87.95  Aligned_cols=177  Identities=14%  Similarity=0.205  Sum_probs=107.5

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ..++||.+..++.|..++..+  ..+.+.++|++|+||||+|+.+++.+... +...+.-.+..   +..+  .......
T Consensus        13 ~~divg~~~~~~~L~~~i~~~--~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~---~~~~--~~~~~~~   85 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS---DDRG--IDVVRNQ   85 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT---SCCS--HHHHHTH
T ss_pred             HHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEeccc---ccCC--eeeeecc
Confidence            468999999999999999854  33457799999999999999999876432 22222222111   1111  1111111


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHhH-Hh-hCCCc
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEHL-LK-LHRVE  296 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~-~~-~~~~~  296 (483)
                      .........               ...++..++|+|+++..  .....+...+......+.++++|.+..- .. .....
T Consensus        86 ~~~~~~~~~---------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~  150 (227)
T d1sxjc2          86 IKDFASTRQ---------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  150 (227)
T ss_dssp             HHHHHHBCC---------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             hhhcccccc---------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHH
Confidence            111111000               01234458999999643  3333444333333567788887775432 11 12345


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      ..+.+.+++.++-..++.+.+......  ...+..+.|++.++|..
T Consensus       151 ~~i~~~~~~~~~i~~~l~~I~~~e~i~--i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         151 TRFRFQPLPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDM  194 (227)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCH
T ss_pred             hhhcccccccccccccccccccccccc--CCHHHHHHHHHHcCCcH
Confidence            678999999999999998876443322  22366788999999975

>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=98.81  E-value=2.2e-08  Score=88.52  Aligned_cols=181  Identities=13%  Similarity=0.192  Sum_probs=108.3

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc-ceeEEEEecccccccCCcHHHHHHHH
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF-DGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      ..++||-+..++.|..++...  ..+.+.++|++|+||||+|+.+++.+...+ ...++..+..   +..+. ..+.. .
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~---~~~~~-~~i~~-~   86 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS---DDRGI-DVVRN-Q   86 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT---SCCSH-HHHHT-H
T ss_pred             HHHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccc---ccCCc-eehhh-H
Confidence            368999999999999999854  344578999999999999999998765432 2223333222   11111 22221 1


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HHh-hCCCc
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LLK-LHRVE  296 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~~~~  296 (483)
                      ...........              ..++.-++|+|+++..  .....+...+......+++++++.+.. +.. .....
T Consensus        87 ~~~~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~  152 (224)
T d1sxjb2          87 IKHFAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  152 (224)
T ss_dssp             HHHHHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHhhccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHH
Confidence            12211111000              0235568999999643  222222222222245667777666542 211 22345


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                      ..+++++++.++-...+...+......  ...+....|++.++|.+.-+
T Consensus       153 ~~i~~~~~~~~~i~~~l~~i~~~e~~~--i~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         153 AILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhhcccchhhhHHHHHHHHHhcccC--CCHHHHHHHHHHcCCcHHHH
Confidence            679999999999999998776443322  22356789999999987543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.77  E-value=2.8e-08  Score=89.52  Aligned_cols=192  Identities=13%  Similarity=0.117  Sum_probs=99.4

Q ss_pred             HHhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc--------------
Q 038919          142 LKELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY--------------  207 (483)
Q Consensus       142 i~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~--------------  207 (483)
                      ..+++|.+...+.|..++.... ..+.+.|+|++|+||||+|+.+++.+.......... +.....              
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   87 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKI-DVRQFVTASNRKLELNVVSS   87 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC-------------------CCEEC
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCcccccccc-ccccccccccchhhhhhccC
Confidence            3679999999999988876432 345578999999999999999998752211000000 000000              


Q ss_pred             ----------ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCC
Q 038919          208 ----------DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFG  275 (483)
Q Consensus       208 ----------~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~  275 (483)
                                ..... ..................       ...-......+.-++|||+++..  .....+...+....
T Consensus        88 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          88 PYHLEITPSDMGNND-RIVIQELLKEVAQMEQVD-------FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             SSEEEECCC----CC-HHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             CccceeeecccccCC-cceeeehhhhhhhhhhhh-------hhhcccccCCCceEEEeccccccccccchhhhccccccc
Confidence                      00000 111111111110000000       00001112234568999999753  33333322222225


Q ss_pred             CCcEEEEEcCCHh-HHh-hCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH
Q 038919          276 PGSRIIITTRDEH-LLK-LHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA  344 (483)
Q Consensus       276 ~~~~iliTtR~~~-~~~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  344 (483)
                      ..+++|+||.+.. +.. .......+++.+++.++..+++...+-...... ...+..+.|+..+.|.+..
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~-~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQL-ETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEE-CCSHHHHHHHHHHTTCHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCC-CcHHHHHHHHHHcCCcHHH
Confidence            6677777776542 111 112335789999999999999977653322111 1125667889999998753

>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=98.76  E-value=1.2e-08  Score=91.17  Aligned_cols=187  Identities=10%  Similarity=0.126  Sum_probs=105.5

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc--ceeEEEEecccccccCCcHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF--DGSSFLADVKEKYDKEGSVISLQKQL  220 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~l  220 (483)
                      .+++|.+..++.|..++...  ..+.+.++|++|+||||+++.+++++....  ....+..+..   ...+. .... ..
T Consensus        12 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~---~~~~~-~~~~-~~   84 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS---DERGI-SIVR-EK   84 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS---SCCCH-HHHT-TH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheecc---ccccc-hHHH-HH
Confidence            57999999999999999854  345588999999999999999998763321  1112222111   11111 2211 11


Q ss_pred             HHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCc
Q 038919          221 ISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVE  296 (483)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~  296 (483)
                      ........... ...    ..+......+.-++|+|+++..  .....+...+......+.+++|+.+.. .... ....
T Consensus        85 ~~~~~~~~~~~-~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~  159 (237)
T d1sxjd2          85 VKNFARLTVSK-PSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  159 (237)
T ss_dssp             HHHHHHSCCCC-CCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HHHHhhhhhhh-hhH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchh
Confidence            22211111111 110    1112222334457999999643  333333222222245666777665432 1111 1123


Q ss_pred             ceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH
Q 038919          297 EVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL  343 (483)
Q Consensus       297 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  343 (483)
                      ..+++.+++.++...++...+......  -..+..+.|++.++|.+.
T Consensus       160 ~~i~f~~~~~~~~~~~L~~i~~~e~i~--i~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         160 SKFRFKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLR  204 (237)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHH
T ss_pred             hhhccccccccccchhhhhhhhhhcCc--CCHHHHHHHHHHcCCCHH
Confidence            578999999999999998877544322  234667888999988753

>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=98.71  E-value=2.6e-07  Score=83.14  Aligned_cols=178  Identities=17%  Similarity=0.169  Sum_probs=103.3

Q ss_pred             HhhhchhHHHHHHHHHh----hc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCC
Q 038919          143 KELVGIESRLEKLKFLM----GA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEG  211 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L----~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  211 (483)
                      ..++|.+...++|.+.+    ..       +-...+-+.++|++|+|||++|+++++.....    ++..+........ 
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~----~~~i~~~~l~~~~-   78 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKL-   78 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE----EEEECHHHHTTSC-
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe----EEEEEchhhcccc-
Confidence            45788888888887753    21       22235678999999999999999999965443    3333221111100 


Q ss_pred             cHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCCC
Q 038919          212 SVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWFG  275 (483)
Q Consensus       212 ~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~~  275 (483)
                                         ...........+...-...|++|++||++..                ..+..+.... ...
T Consensus        79 -------------------~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~-~~~  138 (258)
T d1e32a2          79 -------------------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL-KQR  138 (258)
T ss_dssp             -------------------TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTC-CCS
T ss_pred             -------------------cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccc-ccc
Confidence                               0011111222233344578999999999642                1111112221 113


Q ss_pred             CCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHH-HHHH
Q 038919          276 PGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLA-LKVL  348 (483)
Q Consensus       276 ~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa-l~~l  348 (483)
                      .+.-||.||..+.....     ......+.++..+.++-.++|.....+.....+   .....|++.+.|+--+ |..+
T Consensus       139 ~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~---~~~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         139 AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             SCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTT---CCHHHHHHHCTTCCHHHHHHH
T ss_pred             CCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccc---cchhhhhhcccCCCHHHHHHH
Confidence            45556668876643221     135578999999999999999887744322221   1146788888886433 4433

>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=98.70  E-value=8e-08  Score=85.22  Aligned_cols=177  Identities=15%  Similarity=0.186  Sum_probs=104.3

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc-cceeEEEEecccccccCCcHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE-FDGSSFLADVKEKYDKEGSVISLQKQLI  221 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll  221 (483)
                      .+++|-+...+.|..++..+  ..+.+.|+|++|+||||+|+.+++.+... +....+..+......     ........
T Consensus        24 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~-----~~~~~~~~   96 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG-----INVIREKV   96 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH-----HHTTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccc-----hhHHHHHH
Confidence            67999999999999999865  34568899999999999999999876432 222222222211100     00001111


Q ss_pred             HHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcc
Q 038919          222 SDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEE  297 (483)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~  297 (483)
                      .......               .....++.++++|+++.  ......+...+........+|+||.... +... .....
T Consensus        97 ~~~~~~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~  161 (231)
T d1iqpa2          97 KEFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  161 (231)
T ss_dssp             HHHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHhhh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccc
Confidence            1100000               00124667899999963  2333333322222234455666665432 2111 12345


Q ss_pred             eEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH
Q 038919          298 VFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL  343 (483)
Q Consensus       298 ~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  343 (483)
                      .+.+.+.+.++....+.+.+......  -..+..+.|++.++|..-
T Consensus       162 ~i~~~~~~~~~~~~~l~~~~~~e~i~--i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         162 IFRFRPLRDEDIAKRLRYIAENEGLE--LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCE--ECHHHHHHHHHHHTTCHH
T ss_pred             cccccccchhhHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHH
Confidence            78999999999999998887544321  234567889999998764

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.68  E-value=3.8e-08  Score=93.40  Aligned_cols=152  Identities=13%  Similarity=0.114  Sum_probs=89.4

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc------cceeEEEEecccccccCCcHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE------FDGSSFLADVKEKYDKEGSVISL  216 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~l  216 (483)
                      ++.|||+.+++++...|.....  .-+.++|++|+|||+|+..+++++...      ....+|..++.......      
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~------   93 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA------   93 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhccc------
Confidence            4689999999999999985322  335778999999999999999886543      23456666543221111      


Q ss_pred             HHHHHHHHhcccCCCccchhhhHHHHHHHHh--cCceEEEEcCCCCHH----------HHHHHhcCCCCCCCCcEEEEEc
Q 038919          217 QKQLISDLLKLADNSIRNVYDGINMIGRRLR--QKKVLLVIDDVAHVE----------QLRRLAGKRDWFGPGSRIIITT  284 (483)
Q Consensus       217 ~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~----------~~~~l~~~~~~~~~~~~iliTt  284 (483)
                                   .........+..+...+.  ..+++|++|++...-          ...-|.+.+.  ....++|.+|
T Consensus        94 -------------~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~t  158 (387)
T d1qvra2          94 -------------KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGAT  158 (387)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEE
T ss_pred             -------------CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeec
Confidence                         111233333333333332  347899999996441          1111222221  2446677777


Q ss_pred             CCHhHHhh------CCCcceEecCCCChHHHHHHHHHhh
Q 038919          285 RDEHLLKL------HRVEEVFKLEALTYDEAFQLFCLKA  317 (483)
Q Consensus       285 R~~~~~~~------~~~~~~~~l~~L~~~ea~~L~~~~~  317 (483)
                      .....-..      ....+.+.|++.+.+++..++....
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            65544221      1234678999999999999997654

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.66  E-value=4.9e-07  Score=78.42  Aligned_cols=179  Identities=14%  Similarity=0.080  Sum_probs=100.7

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhc-
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLK-  226 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~-  226 (483)
                      -+...+.+.+.+..+. -+..+.++|++|+||||+|..+++.+-..-..         .....+. ..-...+...... 
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~---------~~~~~~~-~~~~~~i~~~~~~~   75 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQ---------GHKSCGH-CRGCQLMQAGTHPD   75 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCB---------TTBCCSC-SHHHHHHHHTCCTT
T ss_pred             cHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhccccccc---------ccccccc-cchhhhhhhccccc
Confidence            3455677777776432 24568999999999999999999876422110         0000000 0000011000000 


Q ss_pred             ---c---cCCCccchhhhHHHHHHHH-----hcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh
Q 038919          227 ---L---ADNSIRNVYDGINMIGRRL-----RQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL  292 (483)
Q Consensus       227 ---~---~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~  292 (483)
                         .   .....-..++ +..+.+.+     .+++-++|+||++.  .+....++..+.....++.+|+||++.. +...
T Consensus        76 ~~~~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~t  154 (207)
T d1a5ta2          76 YYTLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLAT  154 (207)
T ss_dssp             EEEECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHH
T ss_pred             cchhhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhh
Confidence               0   0000111111 11222222     24566999999974  4455555555544467888888887653 3222


Q ss_pred             -CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHH
Q 038919          293 -HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLAL  345 (483)
Q Consensus       293 -~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal  345 (483)
                       ......+.+.+++.++....+.....       ...+.+..+++.++|.|-..
T Consensus       155 I~SRc~~i~~~~~~~~~~~~~L~~~~~-------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         155 LRSRCRLHYLAPPPEQYAVTWLSREVT-------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHCC-------CCHHHHHHHHHHTTTCHHHH
T ss_pred             hcceeEEEecCCCCHHHHHHHHHHcCC-------CCHHHHHHHHHHcCCCHHHH
Confidence             23456899999999999999976541       12356778889999998544

>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=98.61  E-value=3.1e-07  Score=82.24  Aligned_cols=173  Identities=14%  Similarity=0.133  Sum_probs=98.9

Q ss_pred             HhhhchhHHHHHHHHHh---hc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLM---GA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L---~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.+...++|.+.+   ..       +....+.+.++|++|+|||++|+.+++.....    ++..+.....+.   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~---   84 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEM---   84 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTS---
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhc---
Confidence            57888888877776543   21       12235678899999999999999999876433    333322221110   


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCC--C
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDW--F  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~  274 (483)
                                       -...........+...-+..|++|++||++..                ..+..|+..+..  .
T Consensus        85 -----------------~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          85 -----------------FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             -----------------CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             -----------------chhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence                             00011112222333344578899999999421                112233322211  1


Q ss_pred             CCCcEEEEEcCCHhHHh-h----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 GPGSRIIITTRDEHLLK-L----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 ~~~~~iliTtR~~~~~~-~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                      ..+.-||.||..+.... .    ......+.+++.+.++-.++++....+.....+   .....+++.+.|..
T Consensus       148 ~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~---~~~~~la~~t~G~s  217 (256)
T d1lv7a_         148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFS  217 (256)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCC
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcc---cCHHHHHHhCCCCC
Confidence            33445566777653321 1    134578999999999999999887644332221   12456677787764

>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=98.60  E-value=2.1e-07  Score=82.96  Aligned_cols=172  Identities=19%  Similarity=0.228  Sum_probs=95.4

Q ss_pred             HhhhchhHHHHHHHHHhh---c-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCc
Q 038919          143 KELVGIESRLEKLKFLMG---A-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGS  212 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~---~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  212 (483)
                      .+++|.++..+.|.+.+.   .       +...++-+.++|++|+|||+||+.+++.....    ++..+...       
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            467888877776665331   1       22234568999999999999999999866432    33332211       


Q ss_pred             HHHHHHHHHHHHhcccCCCccchhhhHH-HHHHHHhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC-
Q 038919          213 VISLQKQLISDLLKLADNSIRNVYDGIN-MIGRRLRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF-  274 (483)
Q Consensus       213 ~~~l~~~ll~~~~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~-  274 (483)
                             +...       ........+. .+...-...|++|+|||++..                ..+..|+..+... 
T Consensus        78 -------l~~~-------~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~  143 (247)
T d1ixza_          78 -------FVEM-------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  143 (247)
T ss_dssp             -------HHHS-------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             -------hhhc-------cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC
Confidence                   1111       0111111122 222233467899999998532                0123333222111 


Q ss_pred             -CCCcEEEEEcCCHhHHhh-----CCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh
Q 038919          275 -GPGSRIIITTRDEHLLKL-----HRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP  342 (483)
Q Consensus       275 -~~~~~iliTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  342 (483)
                       ..+.-||.||..+.....     ......+.+++.+.++-.++++..........+   .....+++.|.|..
T Consensus       144 ~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~---~~~~~la~~t~g~s  214 (247)
T d1ixza_         144 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFV  214 (247)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCC
T ss_pred             CCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccc---cCHHHHHHHCCCCC
Confidence             233334447765433211     134568999999999999999887754332221   11455666777753

>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=98.58  E-value=9.7e-08  Score=85.87  Aligned_cols=188  Identities=15%  Similarity=0.180  Sum_probs=100.5

Q ss_pred             HhhhchhHHHHHHHHHhhc---------------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccccc
Q 038919          143 KELVGIESRLEKLKFLMGA---------------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKY  207 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---------------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~  207 (483)
                      ..++|.+..+++|.+++..               +....+.+.++|++|+||||+|+.+++.+...    ++..+.....
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~~~~~   89 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD----ILEQNASDVR   89 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE----EEEECTTSCC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh----hhccccccch
Confidence            6899999999999998743               12235689999999999999999999865432    3333222111


Q ss_pred             ccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH-----HHHHHHhcCCCCCCCCcEEEE
Q 038919          208 DKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV-----EQLRRLAGKRDWFGPGSRIII  282 (483)
Q Consensus       208 ~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~ili  282 (483)
                          . ................ .......  .........+..++++|+++..     ..+..+.....  .....+++
T Consensus        90 ----~-~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~  159 (253)
T d1sxja2          90 ----S-KTLLNAGVKNALDNMS-VVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLIL  159 (253)
T ss_dssp             ----C-HHHHHHTGGGGTTBCC-STTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEE
T ss_pred             ----h-hHHHHHHHHHHhhcch-hhhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--cccccccc
Confidence                1 1112111111111100 0000000  0011112356778999998421     11222221110  12223444


Q ss_pred             EcC--CH-hHHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCCh-HHHH
Q 038919          283 TTR--DE-HLLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLP-LALK  346 (483)
Q Consensus       283 TtR--~~-~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~  346 (483)
                      |+.  .. .+.........+.+.+++.++-...+...+......-  ..+..+.|++.++|.. -||.
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i--~~~~l~~i~~~s~GDiR~ai~  225 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKL--DPNVIDRLIQTTRGDIRQVIN  225 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC--CTTHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCC--CHHHHHHHHHhCCCcHHHHHH
Confidence            432  22 1222233456899999999999999887653322111  1145778899999977 4443

>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=98.48  E-value=1.7e-06  Score=76.88  Aligned_cols=51  Identities=12%  Similarity=0.029  Sum_probs=34.5

Q ss_pred             HhhhchhHHHHHHHHH-------hhc-CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          143 KELVGIESRLEKLKFL-------MGA-GCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~-------L~~-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.+||....++.+.+-       +.. .....+-|.++|++|+|||++|+.+++.....
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            4566666655544432       222 22235678999999999999999999876543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.48  E-value=2.3e-06  Score=74.29  Aligned_cols=167  Identities=19%  Similarity=0.170  Sum_probs=90.9

Q ss_pred             hhchhHHH--HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHH
Q 038919          145 LVGIESRL--EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLIS  222 (483)
Q Consensus       145 ~vGR~~~l--~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~  222 (483)
                      +||-..++  ..+.++..........+.|+|++|+|||.|+.++++.........+++. .          ......+..
T Consensus        13 ~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~-~----------~~~~~~~~~   81 (213)
T d1l8qa2          13 IVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-A----------DDFAQAMVE   81 (213)
T ss_dssp             CCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-H----------HHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec-h----------HHHHHHHHH
Confidence            45654433  3334444433233345789999999999999999999877766656654 1          233333333


Q ss_pred             HHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH---HH----HHHHhcCCCCCCCCcEEEEEcCCHh-------
Q 038919          223 DLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV---EQ----LRRLAGKRDWFGPGSRIIITTRDEH-------  288 (483)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~----~~~l~~~~~~~~~~~~iliTtR~~~-------  288 (483)
                      .+...      .    ...+.+.++ .--+|+|||++..   ..    +-.+...+.  ..|..||+||+...       
T Consensus        82 ~~~~~------~----~~~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~--~~~~~iiits~~~p~~l~~~~  148 (213)
T d1l8qa2          82 HLKKG------T----INEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLY--LLEKQIILASDRHPQKLDGVS  148 (213)
T ss_dssp             HHHHT------C----HHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHH--HTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHcc------c----hhhHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHh--hccceEEEecCCcchhccccc
Confidence            32111      0    111222333 3348999999632   22    222222211  36788999998542       


Q ss_pred             --HHhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHh
Q 038919          289 --LLKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYA  338 (483)
Q Consensus       289 --~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  338 (483)
                        +........++.++ ++.++-.+++.+.+-.....  ...+++.-|++++
T Consensus       149 ~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~--l~~~v~~yl~~~~  197 (213)
T d1l8qa2         149 DRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLE--LRKEVIDYLLENT  197 (213)
T ss_dssp             HHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCC--CCHHHHHHHHHHC
T ss_pred             hHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhc
Confidence              22222344567786 47777778887776432222  2224455555554

>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=98.44  E-value=3.6e-07  Score=82.52  Aligned_cols=151  Identities=11%  Similarity=0.135  Sum_probs=86.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRR  245 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~  245 (483)
                      .+-+.++|++|+|||+||++++......    ++..+....                  ....  ...........+...
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l------------------~~~~--~~~~~~~l~~~f~~A   96 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPEL------------------LTMW--FGESEANVREIFDKA   96 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHH------------------HTSC--TTTHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHHh------------------hhcc--ccchHHHHHHHHHHH
Confidence            5678899999999999999999977543    333321111                  0100  011112222233334


Q ss_pred             HhcCceEEEEcCCCCH----------------HHHHHHhcCCCCC--CCCcEEEEEcCCHhHH-hh----CCCcceEecC
Q 038919          246 LRQKKVLLVIDDVAHV----------------EQLRRLAGKRDWF--GPGSRIIITTRDEHLL-KL----HRVEEVFKLE  302 (483)
Q Consensus       246 l~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--~~~~~iliTtR~~~~~-~~----~~~~~~~~l~  302 (483)
                      -...|++|+|||++..                ..+..++..+...  ..+.-||.||..+..+ ..    ......++++
T Consensus        97 ~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~  176 (265)
T d1r7ra3          97 RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP  176 (265)
T ss_dssp             HHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECC
T ss_pred             HhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEec
Confidence            4578999999999522                1234455444322  2345666777755432 11    1345689999


Q ss_pred             CCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChH
Q 038919          303 ALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPL  343 (483)
Q Consensus       303 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  343 (483)
                      +.+.++-.++|+..........+   .....+++.+.|...
T Consensus       177 ~p~~~~R~~il~~~l~~~~~~~~---~~l~~la~~t~g~s~  214 (265)
T d1r7ra3         177 LPDEKSRVAILKANLRKSPVAKD---VDLEFLAKMTNGFSG  214 (265)
T ss_dssp             CCCCHHHHHHHHHHTTCC----C---CCCHHHHHHHCSSCC
T ss_pred             chHHHHHHHHHHHHhccCCchhh---hhHHHHHhcCCCCCH
Confidence            99999999999877643221111   114567777777653

>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=98.43  E-value=3.9e-06  Score=74.26  Aligned_cols=171  Identities=17%  Similarity=0.137  Sum_probs=97.7

Q ss_pred             HhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +++||-+..++.|..++..   .....+.+.++|++|+|||++|+.+++.+...+.    ..+..   ... . ..-...
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~----~~~~~---~~~-~-~~~~~~   79 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH----VTSGP---VLV-K-QGDMAA   79 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE----EEETT---TCC-S-HHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcc----cccCc---ccc-c-HHHHHH
Confidence            6799999999999988753   1223456889999999999999999997654421    11111   111 1 111111


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--H---HHHHHhcC---------------CCCCCCCcE
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--E---QLRRLAGK---------------RDWFGPGSR  279 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~---~~~~l~~~---------------~~~~~~~~~  279 (483)
                      .+.                       ..+++..+++|.++..  .   .+......               .....+...
T Consensus        80 ~~~-----------------------~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (238)
T d1in4a2          80 ILT-----------------------SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  136 (238)
T ss_dssp             HHH-----------------------HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             HHH-----------------------hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeE
Confidence            111                       1234456667766432  1   11111100               000123445


Q ss_pred             EEEEcCCHhHH---hhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHHH
Q 038919          280 IIITTRDEHLL---KLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALKV  347 (483)
Q Consensus       280 iliTtR~~~~~---~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  347 (483)
                      +|++|.+....   ........+.+++.+.++...++...+......  ...+.+..+++.++|.+-.+..
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch--hhHHHHHHHHHhCCCCHHHHHH
Confidence            55555544221   112334567899999999999998776544322  2335678889999998765543

>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=98.38  E-value=3e-06  Score=75.08  Aligned_cols=171  Identities=20%  Similarity=0.127  Sum_probs=96.6

Q ss_pred             HhhhchhHHHHHHHHHhhc---CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGA---GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQ  219 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~---~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~  219 (483)
                      +++||-++..++|..++..   .....+-+.++|++|+||||+|+.+++.....|    ...+..    .... ......
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~----~~~~~~----~~~~-~~~~~~   79 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL----RVTSGP----AIEK-PGDLAA   79 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE----EEEETT----TCCS-HHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe----EeccCC----cccc-chhhHH
Confidence            5789999988988888753   223356788999999999999999998765432    222111    1111 111111


Q ss_pred             HHHHHhcccCCCccchhhhHHHHHHHHhcCceEEEEcCCCCH--HHHHHHhcCC--------C----------CCCCCcE
Q 038919          220 LISDLLKLADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAHV--EQLRRLAGKR--------D----------WFGPGSR  279 (483)
Q Consensus       220 ll~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~~--------~----------~~~~~~~  279 (483)
                      .                     +... .+.+.++++|+++..  ..-+.+....        .          ...+...
T Consensus        80 ~---------------------~~~~-~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          80 I---------------------LANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             H---------------------HHTT-CCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             H---------------------HHhh-ccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence            1                     1111 123446677888532  1111111000        0          0022334


Q ss_pred             EEEEc-CCHhH--HhhCCCcceEecCCCChHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhCCChHHHH
Q 038919          280 IIITT-RDEHL--LKLHRVEEVFKLEALTYDEAFQLFCLKAFETQKPREEYVHLSQLVVNYAGGLPLALK  346 (483)
Q Consensus       280 iliTt-R~~~~--~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~  346 (483)
                      ++.++ +....  .........+.+.+.+.++..+++...+......  ...+....|++.+.|.+-...
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~--~~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCC--BCHHHHHHHHHHTTSSHHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCc--cchHHHHHHHHHcCCCHHHHH
Confidence            44444 42221  1122234578899999999999888776443322  234678899999999876554

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.58  E-value=0.00013  Score=62.06  Aligned_cols=130  Identities=13%  Similarity=0.014  Sum_probs=73.5

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc---cceeEEEEecccccccCCcHHHHHHHHHHHHhcc
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE---FDGSSFLADVKEKYDKEGSVISLQKQLISDLLKL  227 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~  227 (483)
                      +++.+.+++...  ..+.+.++|++|+|||++|..+++.+...   ++...++. ..  ...-+  .+-.+.+...+...
T Consensus         2 ~~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~-~~--~~~I~--Id~IR~i~~~~~~~   74 (198)
T d2gnoa2           2 QLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID-PE--GENIG--IDDIRTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC-CS--SSCBC--HHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEe-CC--cCCCC--HHHHHHHHHHHhhC
Confidence            567777777744  46899999999999999999999866433   22333332 10  01111  12222233322111


Q ss_pred             cCCCccchhhhHHHHHHHHhcCceEEEEcCCCC--HHHHHHHhcCCCCCCCCcEEEEEcCCHh-HHhh-CCCcceEecCC
Q 038919          228 ADNSIRNVYDGINMIGRRLRQKKVLLVIDDVAH--VEQLRRLAGKRDWFGPGSRIIITTRDEH-LLKL-HRVEEVFKLEA  303 (483)
Q Consensus       228 ~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~~-~~~~~~~~l~~  303 (483)
                      .                 ..+++=++|+|+++.  .+...+|+..+.....++.+|++|.+.. +.+. ......+.+.+
T Consensus        75 ~-----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          75 P-----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             C-----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             c-----------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCC
Confidence            0                 023445899999973  4555566555444456777777777653 2222 22334566664


Q ss_pred             C
Q 038919          304 L  304 (483)
Q Consensus       304 L  304 (483)
                      .
T Consensus       138 p  138 (198)
T d2gnoa2         138 P  138 (198)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=97.50  E-value=0.00072  Score=61.76  Aligned_cols=62  Identities=18%  Similarity=0.175  Sum_probs=42.2

Q ss_pred             HhhhchhHHHHHHHHHhhc-------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccc
Q 038919          143 KELVGIESRLEKLKFLMGA-------GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYD  208 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  208 (483)
                      ...+|-+.-++.+...+..       .+....++.++|++|+|||.||+.++..+..    .....+..+..+
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~----~~i~~d~s~~~~   90 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI----ELLRFDMSEYME   90 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC----EEEEEEGGGCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC----CeeEeccccccc
Confidence            4578888888877665531       1222457889999999999999999987643    234444554433

>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=97.50  E-value=0.00048  Score=57.02  Aligned_cols=25  Identities=36%  Similarity=0.508  Sum_probs=22.5

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      |+|+|++|+|||||++.++..+...
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            7899999999999999999877654

>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=97.46  E-value=0.0015  Score=57.35  Aligned_cols=46  Identities=22%  Similarity=0.210  Sum_probs=34.7

Q ss_pred             hhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          144 ELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .|||....++++.+.+..-......|.|+|++|+|||++|+.+.+.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            3788888888887766542222234789999999999999999764

>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=97.43  E-value=6e-05  Score=62.84  Aligned_cols=35  Identities=20%  Similarity=0.081  Sum_probs=28.0

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      ...+|.|+|++|+||||+|+.++.++...|-...+
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~   39 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVS   39 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchh
Confidence            35788999999999999999999998765433333

>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=97.38  E-value=0.00015  Score=61.39  Aligned_cols=38  Identities=24%  Similarity=0.224  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          162 GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       162 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      ...++-+|+|.|++|+||||||+.+...+.........
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~   55 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCV   55 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhcccccccee
Confidence            44556789999999999999999999887765444333

>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=97.34  E-value=0.00054  Score=62.54  Aligned_cols=49  Identities=22%  Similarity=0.293  Sum_probs=36.5

Q ss_pred             HhhhchhHHHHHHHHHhhc-----C-CCC-cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          143 KELVGIESRLEKLKFLMGA-----G-CND-VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~-----~-~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++|-+.-++.+...+..     . .+. ..++.++|++|+|||.||+.+++.+.
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            5678888888777664431     1 122 34788999999999999999999874

>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=97.32  E-value=9e-05  Score=61.08  Aligned_cols=29  Identities=21%  Similarity=0.300  Sum_probs=25.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .++++|+|.+|+|||||+.++.+.+..+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g   30 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARG   30 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            47999999999999999999999876653

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.27  E-value=7.1e-05  Score=68.60  Aligned_cols=49  Identities=20%  Similarity=0.264  Sum_probs=34.2

Q ss_pred             hhhchhHHHHHHHHHhh----c--------CCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          144 ELVGIESRLEKLKFLMG----A--------GCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       144 ~~vGR~~~l~~l~~~L~----~--------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      ..+|-++-.+.+...+.    .        ....++.+.++||+|+|||.||+++++....
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~   75 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   75 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcccc
Confidence            45777777776655441    0        0012356789999999999999999987643

>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=97.26  E-value=8.2e-05  Score=62.21  Aligned_cols=28  Identities=29%  Similarity=0.345  Sum_probs=24.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +.|.|+|++|+|||||+++++..+....
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            4689999999999999999999876553

>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=97.21  E-value=7.1e-05  Score=62.71  Aligned_cols=26  Identities=19%  Similarity=0.344  Sum_probs=23.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++.|+|.|++|+||||||+.+++++.
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            57899999999999999999999653

>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=97.20  E-value=6.3e-05  Score=61.59  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +.|.|+|++|+||||+|+.++.++.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4588889999999999999999763

>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=97.18  E-value=0.0025  Score=53.90  Aligned_cols=38  Identities=26%  Similarity=0.233  Sum_probs=29.1

Q ss_pred             CCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          163 CNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       163 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      ...+.++.++|+.|+||||.+..++.++...- ..+.+.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~kV~li   43 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQG-KSVMLA   43 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTT-CCEEEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-CcEEEE
Confidence            34578999999999999999998888876543 344444

>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=97.17  E-value=0.00038  Score=61.62  Aligned_cols=99  Identities=22%  Similarity=0.266  Sum_probs=54.7

Q ss_pred             HHHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCc
Q 038919          154 KLKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSI  232 (483)
Q Consensus       154 ~l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~  232 (483)
                      .|..+|. .+-...+++-|+|++|+||||||.+++......-...+|+. .....+     ...++.+.-..-...-...
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid-tE~~~~-----~~~a~~~Gvd~d~v~~~~~  114 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID-AEHALD-----PIYARKLGVDIDNLLCSQP  114 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSCCCC-----HHHHHHTTCCGGGCEEECC
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc-cccccC-----HHHHHHhCCCHHHEEEecC
Confidence            3444453 22223579999999999999999999988776655556654 222111     2222222100000001112


Q ss_pred             cchhhhHHHHHHHHh-cCceEEEEcCC
Q 038919          233 RNVYDGINMIGRRLR-QKKVLLVIDDV  258 (483)
Q Consensus       233 ~~~~~~~~~l~~~l~-~~~~LlVlDdv  258 (483)
                      .+.++..+.+....+ +..-|+|+|.+
T Consensus       115 ~~~E~~~~~i~~l~~~~~~~liViDSi  141 (263)
T d1u94a1         115 DTGEQALEICDALARSGAVDVIVVDSV  141 (263)
T ss_dssp             SSHHHHHHHHHHHHHHTCCSEEEEECG
T ss_pred             CCHHHHHHHHHHHHhcCCCCEEEEECc
Confidence            345555555555555 34558889987

>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=97.12  E-value=0.00011  Score=62.21  Aligned_cols=35  Identities=20%  Similarity=0.152  Sum_probs=28.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+|.|+|++|+||||+|+.++.++...+....++
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            56888999999999999999999887666554444

>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=97.12  E-value=0.00012  Score=60.47  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++|.|+|++|+||||+|++++..+.
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            6899999999999999999988643

>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=97.11  E-value=0.00013  Score=58.88  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ++|.|+|++|+||||||+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999988764

>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=97.10  E-value=0.00016  Score=59.68  Aligned_cols=28  Identities=25%  Similarity=0.412  Sum_probs=24.9

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ...+++.|.|++|+||||+|+.++.++.
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            4578999999999999999999998764

>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=97.09  E-value=0.00029  Score=62.86  Aligned_cols=29  Identities=21%  Similarity=0.300  Sum_probs=24.9

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      .+..|.++|++|+||||||+.++..+...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            36779999999999999999999976543

>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=97.03  E-value=0.0014  Score=55.74  Aligned_cols=28  Identities=18%  Similarity=0.279  Sum_probs=24.2

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.+|.++|.+|+||||||+++++.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3578999999999999999999877654

>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=97.02  E-value=0.00014  Score=59.92  Aligned_cols=25  Identities=32%  Similarity=0.339  Sum_probs=21.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +.|+|+|++|+||||+|+.+++++.
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            4578999999999999999998763

>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=97.02  E-value=0.00016  Score=59.91  Aligned_cols=27  Identities=26%  Similarity=0.423  Sum_probs=23.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .++|.|.|++|+||||+|+.+++++..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            368999999999999999999997643

>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=97.00  E-value=0.0017  Score=55.18  Aligned_cols=39  Identities=21%  Similarity=0.164  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          162 GCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       162 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .+..+.++.++|+.|+||||.+..++.++..+-..+.++
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~li   45 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLA   45 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            345578999999999999999988888776554444443

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.99  E-value=0.00094  Score=60.52  Aligned_cols=28  Identities=25%  Similarity=0.318  Sum_probs=23.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .++.++|+||+|||.||+.++..+..++
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~  151 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKD  151 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTS
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCC
Confidence            4677799999999999999999886543

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.98  E-value=0.0015  Score=57.80  Aligned_cols=99  Identities=24%  Similarity=0.247  Sum_probs=56.7

Q ss_pred             HHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCcc
Q 038919          155 LKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIR  233 (483)
Q Consensus       155 l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~  233 (483)
                      |...|. .+-...+++-|+|++|+|||+||.+++......-...+|+. .....+     ...++++.-..-...-..+.
T Consensus        48 lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID-tE~~~~-----~e~a~~~GvD~d~il~~~~~  121 (269)
T d1mo6a1          48 LDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID-AEHALD-----PDYAKKLGVDTDSLLVSQPD  121 (269)
T ss_dssp             HHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE-SSCCCC-----HHHHHHHTCCGGGCEEECCS
T ss_pred             HHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE-CCccCC-----HHHHHHhCCCHHHeEEecCC
Confidence            444453 33344689999999999999999988887666555566664 222221     22223221110000011234


Q ss_pred             chhhhHHHHHHHHhc-CceEEEEcCCC
Q 038919          234 NVYDGINMIGRRLRQ-KKVLLVIDDVA  259 (483)
Q Consensus       234 ~~~~~~~~l~~~l~~-~~~LlVlDdv~  259 (483)
                      ..++..+.+...... +..|||+|.+.
T Consensus       122 ~~E~~~~~~~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         122 TGEQALEIADMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             SHHHHHHHHHHHHHTTCEEEEEEECST
T ss_pred             CHHHHHHHHHHHHhcCCCCEEEEeccc
Confidence            455666655555554 46799999883

>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=96.96  E-value=0.00031  Score=58.61  Aligned_cols=29  Identities=24%  Similarity=0.381  Sum_probs=25.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      ++|+|.|++|+||||+++.++.++.....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~   30 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGV   30 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            68999999999999999999998866543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.96  E-value=0.002  Score=54.61  Aligned_cols=37  Identities=19%  Similarity=0.109  Sum_probs=24.0

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..+.++.++|+.|+||||.+..++.++...-..+.++
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            3578999999999999999988888776543333333

>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=96.95  E-value=0.0019  Score=60.88  Aligned_cols=116  Identities=15%  Similarity=0.082  Sum_probs=70.2

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD  229 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~  229 (483)
                      ..++.+.+++..   ..++|.|+|+.|+||||....+.+.+.......+-+.+.-+..- .+.            .. ..
T Consensus       145 ~~~~~l~~l~~~---~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~-~~~------------~q-~~  207 (401)
T d1p9ra_         145 HNHDNFRRLIKR---PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDI-DGI------------GQ-TQ  207 (401)
T ss_dssp             HHHHHHHHHHTS---SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCC-SSS------------EE-EE
T ss_pred             HHHHHHHHHHhh---hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccccc-CCC------------Ce-ee
Confidence            455566666653   34799999999999999999999877543333333332211100 011            00 00


Q ss_pred             CCccchhhhHHHHHHHHhcCceEEEEcCCCCHHHHHHHhcCCCCCCCCcEEEEEcC
Q 038919          230 NSIRNVYDGINMIGRRLRQKKVLLVIDDVAHVEQLRRLAGKRDWFGPGSRIIITTR  285 (483)
Q Consensus       230 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~iliTtR  285 (483)
                      ....+.......++..++..|=+|++.++.+.+.........   ..|-.|+-|-.
T Consensus       208 v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~aa---~tGhlV~tTlH  260 (401)
T d1p9ra_         208 VNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAVQAS---LTGHLVMSTLH  260 (401)
T ss_dssp             CBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEEC
T ss_pred             ecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHHH---hcCCeEEEEec
Confidence            111222335677888999999999999999988876665441   13444444444

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.87  E-value=0.00032  Score=59.21  Aligned_cols=27  Identities=19%  Similarity=0.172  Sum_probs=24.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+.+|.|.|++|+||||+|+.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999999865

>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=96.87  E-value=0.00039  Score=57.00  Aligned_cols=28  Identities=25%  Similarity=0.124  Sum_probs=25.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ++++|+|..|+|||||+.++..+++.+.
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            5899999999999999999999887653

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.87  E-value=0.00021  Score=58.74  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          169 IGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      |.+.|++|+||||+++.+++++.-.
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            4556999999999999999987544

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.86  E-value=0.0025  Score=53.85  Aligned_cols=35  Identities=23%  Similarity=0.233  Sum_probs=27.3

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      ..+++.++|+.|+||||.+..++.++..+-..+.+
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~l   39 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMF   39 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEE
Confidence            46799999999999999998888877655333333

>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=96.80  E-value=0.00024  Score=58.71  Aligned_cols=25  Identities=28%  Similarity=0.378  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|.|.|++|+||||+|+.+++++
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            4799999999999999999998754

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.79  E-value=0.0004  Score=58.77  Aligned_cols=28  Identities=25%  Similarity=0.218  Sum_probs=24.8

Q ss_pred             CCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          163 CNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       163 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+..++|.|.|++|+||||+|+.+++++
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3457899999999999999999998855

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.77  E-value=0.00038  Score=57.36  Aligned_cols=26  Identities=31%  Similarity=0.309  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .-.|.|.|++|+||||+|+.+++++.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            45689999999999999999998653

>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=96.76  E-value=0.0015  Score=57.86  Aligned_cols=93  Identities=22%  Similarity=0.287  Sum_probs=55.3

Q ss_pred             HHHHhh-cCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccC----
Q 038919          155 LKFLMG-AGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLAD----  229 (483)
Q Consensus       155 l~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~----  229 (483)
                      |..+|. .+-+..+++-|+|++|+|||+||.+++......-..++|+. .....+     ...    +..+ +...    
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD-tE~~~~-----~~~----a~~~-Gvd~d~i~  113 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID-AEHALD-----PVY----ARAL-GVNTDELL  113 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSCCCC-----HHH----HHHT-TCCGGGCE
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE-CCccCC-----HHH----HHHh-CCCchhEE
Confidence            444443 22234579999999999999999999887665544455554 322221     222    2232 2111    


Q ss_pred             -CCccchhhhHHHHHHHHhc-CceEEEEcCC
Q 038919          230 -NSIRNVYDGINMIGRRLRQ-KKVLLVIDDV  258 (483)
Q Consensus       230 -~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv  258 (483)
                       ..+.+.++..+.+...+.. ..-|||+|-+
T Consensus       114 ~~~~~~~E~~~~~~~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         114 VSQPDNGEQALEIMELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             EECCSSHHHHHHHHHHHHTTTCCSEEEEECT
T ss_pred             EEcCCCHHHHHHHHHHHHhcCCCcEEEEecc
Confidence             1234556666666665554 4669999987

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.75  E-value=0.00035  Score=57.14  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             EEEeCCCCCChhHHHHHHHHHhh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      |.|.||+|+||||+++.++.++.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67789999999999999999874

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.73  E-value=0.00057  Score=58.37  Aligned_cols=30  Identities=23%  Similarity=0.193  Sum_probs=25.8

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ...+|.++|++|+||||||+++..++...+
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l~~~~   52 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQLVRDR   52 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            457999999999999999999998875443

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.69  E-value=0.0042  Score=52.50  Aligned_cols=35  Identities=23%  Similarity=0.136  Sum_probs=27.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEE
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSF  199 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  199 (483)
                      +.+++.++|++|+||||.+..++.++..+...+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~l   43 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLL   43 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEE
Confidence            45789999999999999999888877665443333

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.68  E-value=0.00035  Score=57.66  Aligned_cols=25  Identities=28%  Similarity=0.277  Sum_probs=21.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      .|.|.|++|+||||+|+.+++++.-
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4668899999999999999997753

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.63  E-value=0.00044  Score=57.15  Aligned_cols=26  Identities=19%  Similarity=0.226  Sum_probs=22.5

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.+.+|.++|++|+||||+|++++..
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            45679999999999999999988654

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.62  E-value=0.00088  Score=55.94  Aligned_cols=28  Identities=21%  Similarity=0.377  Sum_probs=24.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ++++|.|++|+||||+++.++.++....
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            5789999999999999999999887653

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.57  E-value=0.00056  Score=58.91  Aligned_cols=26  Identities=31%  Similarity=0.449  Sum_probs=23.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .++|+|.||+|+||||+|+.+++++.
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            46999999999999999999999763

>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=96.56  E-value=0.0075  Score=53.00  Aligned_cols=40  Identities=33%  Similarity=0.482  Sum_probs=28.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEeccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKE  205 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  205 (483)
                      .+.++|.|.+|+|||+|+..+++.....-...+.+..+.+
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGe  107 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGE  107 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESC
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEecc
Confidence            3569999999999999999999875443333333333433

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.55  E-value=0.0021  Score=58.53  Aligned_cols=52  Identities=19%  Similarity=0.207  Sum_probs=36.0

Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc-ccceeEEEEecc
Q 038919          153 EKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH-EFDGSSFLADVK  204 (483)
Q Consensus       153 ~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~  204 (483)
                      .++.+.+........+|+|+|+||+|||||..++...+.. .+...+...+..
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDps   90 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPS   90 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGG
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccc
Confidence            3344444434456789999999999999999999987654 445455554443

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.50  E-value=0.0012  Score=57.62  Aligned_cols=47  Identities=23%  Similarity=0.234  Sum_probs=36.3

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEE
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      |.+.|..+-+...++.|+|++|+|||+||.+++.........++|+.
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            44555533334579999999999999999999998877766677765

>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=96.47  E-value=0.0012  Score=58.02  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...++|+|+.|+|||||++.+..
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            36899999999999999998875

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.44  E-value=0.00087  Score=56.38  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.+|.|.|++|+||||+|+.+++.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999865

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.0023  Score=55.52  Aligned_cols=24  Identities=38%  Similarity=0.646  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...++|+|+.|+|||||++.+..-
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            358999999999999999998863

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.34  E-value=0.0027  Score=57.92  Aligned_cols=36  Identities=25%  Similarity=0.339  Sum_probs=29.0

Q ss_pred             hhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          159 MGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       159 L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +....++..+|+|+|+||+|||||...+...+....
T Consensus        47 ~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          47 IMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             HGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             hhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            333345678999999999999999999998776653

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.32  E-value=0.0025  Score=56.79  Aligned_cols=41  Identities=29%  Similarity=0.364  Sum_probs=32.2

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ++..+.+.+.  .++.++|.++|-||+||||++..++..+...
T Consensus         7 ~~~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2           7 SLSALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             CHHHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3555666665  3467999999999999999999988877655

>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=96.29  E-value=0.0013  Score=56.30  Aligned_cols=27  Identities=22%  Similarity=0.405  Sum_probs=23.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +-+|+|.|.+|+||||||+.+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999987654

>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=96.28  E-value=0.0042  Score=55.14  Aligned_cols=37  Identities=19%  Similarity=0.265  Sum_probs=28.3

Q ss_pred             HhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          158 LMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       158 ~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +.......+-+|+|.|..|+|||||+..+...+...+
T Consensus        19 ~~~~~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          19 WFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             HHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             HHhcCCCCCEEEEeECCCCCCHHHHHHHHHHHHHHHh
Confidence            3343444466899999999999999999988775543

>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=96.21  E-value=0.001  Score=55.73  Aligned_cols=25  Identities=20%  Similarity=0.110  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +-.|.|.|++|+||||+|+.+++++
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457899999999999999998866

>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=96.19  E-value=0.0016  Score=54.56  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      +.++| |.|++|+||||+|+.+++++
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45566 67999999999999999865

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.18  E-value=0.0035  Score=54.98  Aligned_cols=24  Identities=38%  Similarity=0.490  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||++.++--
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            468999999999999999998753

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.16  E-value=0.0011  Score=55.46  Aligned_cols=29  Identities=34%  Similarity=0.488  Sum_probs=24.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      +.|+|+|++|+|||||++.++++....|.
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            45889999999999999999987655543

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.16  E-value=0.0012  Score=55.51  Aligned_cols=27  Identities=30%  Similarity=0.416  Sum_probs=23.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .|+|.|++|+|||||++.+++.....|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            477999999999999999998765544

>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=96.11  E-value=0.0014  Score=54.24  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.++.++
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            6799999999999999998865

>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=96.11  E-value=0.0058  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.450  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|+|+.|+|||||++.++..+
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCC
Confidence            4689999999999999999998644

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.09  E-value=0.0026  Score=58.89  Aligned_cols=48  Identities=25%  Similarity=0.126  Sum_probs=33.3

Q ss_pred             hhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          145 LVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       145 ~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +.|-+..+-+..+.+..+.+..+.+.++||+|+|||++|..+++.+..
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            445444443333333334556689999999999999999999997654

>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=96.07  E-value=0.0016  Score=55.90  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=21.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      +|+|-|++|+||||+|+.++.++.
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            578999999999999999999763

>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=96.03  E-value=0.0015  Score=54.86  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .++|.|.|++|+||||+|+.+++++
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            4789999999999999999998854

>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=95.98  E-value=0.0029  Score=56.08  Aligned_cols=36  Identities=22%  Similarity=0.403  Sum_probs=28.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      +.|+|+|-||+||||+|..++..+...-. .+.+.+.
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            67899999999999999999998876533 3444433

>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=95.98  E-value=0.0018  Score=53.68  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=20.3

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |+|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999876

>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=95.95  E-value=0.0019  Score=53.61  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=20.3

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999876

>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=95.94  E-value=0.0022  Score=53.68  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      -.|.|.|++|+||||+|+.++.++
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            345677999999999999999864

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.93  E-value=0.0052  Score=55.23  Aligned_cols=39  Identities=31%  Similarity=0.324  Sum_probs=29.6

Q ss_pred             HHHhhcCC-CCcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          156 KFLMGAGC-NDVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       156 ~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      ...|.... ..+-+|+|.|.+|+||||+|+.+...+...+
T Consensus        69 ~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             HHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             HHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            34454432 3367999999999999999999998887554

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.88  E-value=0.0018  Score=53.65  Aligned_cols=29  Identities=14%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      +.|+|+||+|+|||||++++..+....|.
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            57999999999999999999886655543

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.84  E-value=0.0026  Score=56.45  Aligned_cols=29  Identities=21%  Similarity=0.390  Sum_probs=22.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.++|+|.|.+|+||||+++.+.+.+...
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            46799999999999999999998877654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.81  E-value=0.0046  Score=54.03  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...++|+|+.|+|||||++.+..
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            36899999999999999987764

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0061  Score=53.14  Aligned_cols=37  Identities=22%  Similarity=0.330  Sum_probs=28.6

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      |..+|..+=....++.|+|++|+|||++|.+++....
T Consensus        26 LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          26 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4445554444568999999999999999999997643

>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=95.76  E-value=0.0026  Score=52.70  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.3

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.+++++
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4467999999999999999865

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.75  E-value=0.0032  Score=53.59  Aligned_cols=39  Identities=18%  Similarity=0.198  Sum_probs=28.3

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      |..+|..+=....++.|.|++|+|||+||.+++......
T Consensus        12 LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          12 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            444454322235799999999999999999998765443

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.72  E-value=0.0027  Score=52.63  Aligned_cols=25  Identities=28%  Similarity=0.505  Sum_probs=22.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++|+|+|++|+|||||++.+..+..
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            6889999999999999999887653

>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=95.70  E-value=0.0088  Score=52.88  Aligned_cols=31  Identities=19%  Similarity=-0.004  Sum_probs=25.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      ..+.++|.|.+|+|||+|+.++++.......
T Consensus        42 rGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~   72 (289)
T d1xpua3          42 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHP   72 (289)
T ss_dssp             TTCEEEEEECSSSSHHHHHHHHHHHHHHHCT
T ss_pred             CCCeeeEeCCCCCCHHHHHHHHHHHHhhcCC
Confidence            3478999999999999999999987654433

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.70  E-value=0.0031  Score=55.12  Aligned_cols=37  Identities=30%  Similarity=0.480  Sum_probs=28.1

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      |..+|..+=+..+++.|+|++|+|||+||.+++....
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            3344443333468999999999999999999997654

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.61  E-value=0.0029  Score=52.27  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             EEEeCCCCCChhHHHHHHHHHh
Q 038919          169 IGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      |.|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999865

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.53  E-value=0.0053  Score=53.19  Aligned_cols=28  Identities=25%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFD  195 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~  195 (483)
                      +|+|.|+.|+|||||...+.+.......
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~~   29 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNYK   29 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTSC
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhCCe
Confidence            7899999999999999999876655443

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.49  E-value=0.0058  Score=54.73  Aligned_cols=30  Identities=20%  Similarity=0.189  Sum_probs=26.1

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .++++.++|-||+||||+|..++..+...-
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G   36 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQG   36 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCC
Confidence            468899999999999999999998877653

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.011  Score=50.02  Aligned_cols=34  Identities=21%  Similarity=0.292  Sum_probs=27.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ..|+|.|+.|+||||+++.+.+.+......+++.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            6799999999999999999999887653333333

>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=95.38  E-value=0.0033  Score=52.49  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      +-+|+|+|+.|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999998774

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.33  E-value=0.0067  Score=54.28  Aligned_cols=36  Identities=22%  Similarity=0.421  Sum_probs=27.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEec
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADV  203 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  203 (483)
                      +.|+|+|-||+||||+|..++..+...-. .+.+.++
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            56788999999999999999988776533 3444444

>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=95.32  E-value=0.0035  Score=54.04  Aligned_cols=37  Identities=19%  Similarity=0.035  Sum_probs=27.0

Q ss_pred             HHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          155 LKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       155 l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      |.+.|..+-....++.|+|.+|+|||+||.+++....
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~   51 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGI   51 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4455543323457899999999999999998776543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.13  E-value=0.0053  Score=53.29  Aligned_cols=38  Identities=21%  Similarity=0.296  Sum_probs=28.0

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .|.++|..+-....++.|.|.+|+|||++|.+++....
T Consensus        22 ~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          22 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34444443223357999999999999999999997654

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.13  E-value=0.0037  Score=54.26  Aligned_cols=37  Identities=22%  Similarity=0.328  Sum_probs=27.4

Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          154 KLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       154 ~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .|..+|..+=...+++.|+|++|+|||+||.+++...
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            3444554333345799999999999999999988653

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.08  E-value=0.0091  Score=50.31  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=23.8

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      .|+|.|+-|+||||+++.+.+++..+.
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            588999999999999999999887653

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.07  E-value=0.04  Score=46.31  Aligned_cols=27  Identities=37%  Similarity=0.479  Sum_probs=24.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      +.|+|-|+.|+||||++..+.+.+...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~   29 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL   29 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            578999999999999999999988655

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=95.04  E-value=0.021  Score=51.65  Aligned_cols=86  Identities=17%  Similarity=0.176  Sum_probs=52.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEecccccccCCcHHHHHHHHHHHHhcccCCCccchhhhHHHHHHHHh
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLADVKEKYDKEGSVISLQKQLISDLLKLADNSIRNVYDGINMIGRRLR  247 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~~~~~~~~~l~~~l~  247 (483)
                      -+.|+|..|+||||+..+++..+.... ..+.+.+..+..-....          .......   ...-.....++..++
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~~~-rivtiEd~~El~l~~~~----------~~~~~~~---~~~~~~~~ll~~~lR  233 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPKEE-RIISIEDTEEIVFKHHK----------NYTQLFF---GGNITSADCLKSCLR  233 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCTTC-CEEEEESSCCCCCSSCS----------SEEEEEC---BTTBCHHHHHHHHTT
T ss_pred             CEEEEeeccccchHHHHHHhhhccccc-ceeeccchhhhhccccc----------ccceecc---ccchhHHHHHHHHhc
Confidence            489999999999999999988665432 33444433322110000          0000000   111134456778889


Q ss_pred             cCceEEEEcCCCCHHHHHHH
Q 038919          248 QKKVLLVIDDVAHVEQLRRL  267 (483)
Q Consensus       248 ~~~~LlVlDdv~~~~~~~~l  267 (483)
                      ..+=.||+..+.+.+.+..+
T Consensus       234 ~~pd~iivgEiR~~ea~~~l  253 (323)
T d1g6oa_         234 MRPDRIILGELRSSEAYDFY  253 (323)
T ss_dssp             SCCSEEEESCCCSTHHHHHH
T ss_pred             cCCCcccCCccCchhHHHHH
Confidence            99999999999887776544

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.04  E-value=0.0057  Score=56.03  Aligned_cols=45  Identities=24%  Similarity=0.285  Sum_probs=31.8

Q ss_pred             HhhhchhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          143 KELVGIESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       143 ~~~vGR~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ...+|.+.....|.-....  .+..-+.|.|++|+|||+||+.++.-
T Consensus         7 ~~I~Gq~~~kral~laa~~--~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVD--PGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHC--GGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhc--cCCCeEEEECCCCccHHHHHHHHHHh
Confidence            4679998766555433321  12235899999999999999999863

>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=94.98  E-value=0.005  Score=51.55  Aligned_cols=26  Identities=27%  Similarity=0.077  Sum_probs=22.4

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+-+|+|.|.-|+||||+++.+.+.+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999987754

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.82  E-value=0.008  Score=50.75  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=22.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+++|+||+|+|||||...+..+..
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            5889999999999999999988643

>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=94.79  E-value=0.008  Score=52.05  Aligned_cols=28  Identities=21%  Similarity=0.311  Sum_probs=24.5

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      +++.|+|-|+-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4689999999999999999999987644

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=94.75  E-value=0.11  Score=45.59  Aligned_cols=26  Identities=23%  Similarity=0.180  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..++.|.|.+|+|||+++.+++.++.
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a   60 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWG   60 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhh
Confidence            46899999999999999999997754

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.57  E-value=0.017  Score=49.45  Aligned_cols=34  Identities=26%  Similarity=0.331  Sum_probs=26.3

Q ss_pred             EEEEEe-CCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          167 RMIGIW-GMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       167 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ++|+|+ |-||+||||+|..++..+...-..+..+
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            567776 8899999999999998887664444444

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.34  E-value=0.016  Score=53.47  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ...+...||.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4558889999999999999998764

>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=94.30  E-value=0.008  Score=50.49  Aligned_cols=25  Identities=28%  Similarity=0.542  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      ..+++|.|+.|+|||||.+.++..+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3689999999999999999998743

>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=94.29  E-value=0.021  Score=48.89  Aligned_cols=34  Identities=29%  Similarity=0.336  Sum_probs=26.8

Q ss_pred             EEEEEe-CCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          167 RMIGIW-GMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       167 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ++|+|+ +-||+||||+|..++..+...-..+..+
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            688888 6799999999999999887654444444

>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=94.28  E-value=0.012  Score=46.91  Aligned_cols=21  Identities=29%  Similarity=0.200  Sum_probs=18.7

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |.|.|.+|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998753

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.10  E-value=0.013  Score=50.42  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||++.++.
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            35899999999999999999886

>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=94.06  E-value=0.014  Score=49.32  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      -+|+|+|+.|+||||+|..+.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            389999999999999998664

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.05  E-value=0.011  Score=50.50  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.++.
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            46899999999999999997765

>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=94.04  E-value=0.053  Score=47.48  Aligned_cols=35  Identities=17%  Similarity=-0.071  Sum_probs=25.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .+.++|.|.+|+|||+|+.........+...++|.
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~  101 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILNQQGQNVICVYV  101 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEE
T ss_pred             CceEeeccCCCCChHHHHHHHHhhhcccCceeeee
Confidence            35689999999999999988765544444444443

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.01  E-value=0.015  Score=49.62  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=22.7

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..++..|+|.-|+|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999998875

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.00  E-value=0.015  Score=49.30  Aligned_cols=28  Identities=29%  Similarity=0.437  Sum_probs=25.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhcc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHE  193 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  193 (483)
                      ...|+|-|+-|+||||+++.+.+++..+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            4789999999999999999999988764

>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=93.93  E-value=0.016  Score=49.62  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.++-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            46899999999999999998875

>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=93.87  E-value=0.014  Score=49.11  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVY  187 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~  187 (483)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998663

>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=93.82  E-value=0.017  Score=49.63  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999886

>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=93.79  E-value=0.016  Score=46.50  Aligned_cols=22  Identities=36%  Similarity=0.327  Sum_probs=19.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|+|.+|+|||||...+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998763

>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=93.78  E-value=0.016  Score=50.09  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...++|+|+.|+|||||++.+..
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            47899999999999999999875

>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=93.74  E-value=0.013  Score=50.52  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||++.++-
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            36899999999999999998875

>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=93.68  E-value=0.017  Score=49.51  Aligned_cols=24  Identities=17%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+++|.|+.|+|||||.+.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            378899999999999999998743

>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=93.67  E-value=0.0097  Score=51.37  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+.|+|-|+-|+||||+++.+.+.+.
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            37899999999999999999888654

>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=93.61  E-value=0.018  Score=46.35  Aligned_cols=20  Identities=20%  Similarity=0.438  Sum_probs=18.4

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |++.|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998886

>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=93.60  E-value=0.09  Score=46.18  Aligned_cols=25  Identities=24%  Similarity=-0.048  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+.++|.|.+|+|||+|+..+....
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhH
Confidence            3678999999999999998887653

>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=93.58  E-value=0.018  Score=50.03  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...++|+|+.|+|||||++.+..
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            46899999999999999998876

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.56  E-value=0.029  Score=47.31  Aligned_cols=35  Identities=11%  Similarity=0.002  Sum_probs=28.0

Q ss_pred             EEEEEeCCC-CCChhHHHHHHHHHhhcccceeEEEE
Q 038919          167 RMIGIWGMG-GLGKTTLARVVYDLISHEFDGSSFLA  201 (483)
Q Consensus       167 ~~v~I~G~~-GiGKTtLa~~~~~~~~~~f~~~~~~~  201 (483)
                      +.+.|+|-+ |+||||++..++..+.+.-..+.++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            468899998 99999999999998877644445543

>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=93.51  E-value=0.019  Score=47.76  Aligned_cols=25  Identities=16%  Similarity=0.364  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ++.+.|+|.|.+|+|||||...+..
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            3466799999999999999999975

>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=93.48  E-value=0.02  Score=46.63  Aligned_cols=20  Identities=35%  Similarity=0.346  Sum_probs=18.3

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|+|.+|+|||+|+..+.+
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999999876

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=93.47  E-value=0.046  Score=43.43  Aligned_cols=25  Identities=40%  Similarity=0.372  Sum_probs=22.6

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .-+|.+.|.=|+||||+++.+++.+
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            4689999999999999999999865

>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=93.44  E-value=0.028  Score=45.84  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..-|+|+|.+|+|||||..++..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34578999999999999988764

>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=93.40  E-value=0.021  Score=46.10  Aligned_cols=21  Identities=29%  Similarity=0.283  Sum_probs=18.8

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||+|+..+.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378899999999999999886

>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=93.39  E-value=0.021  Score=45.99  Aligned_cols=20  Identities=30%  Similarity=0.316  Sum_probs=18.7

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.+.|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999986

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.31  E-value=0.027  Score=45.76  Aligned_cols=23  Identities=26%  Similarity=0.198  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .-|.|.|.+|+||||||.++..+
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            56899999999999999998874

>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=93.22  E-value=0.33  Score=41.18  Aligned_cols=23  Identities=35%  Similarity=0.185  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .+++.|+|+...||||+.+.++-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            47899999999999999999875

>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=93.21  E-value=0.016  Score=49.45  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|+|||||.+.++--
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999999863

>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=93.16  E-value=0.024  Score=47.54  Aligned_cols=23  Identities=30%  Similarity=0.193  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      +.|+|.|.+|+|||||...+...
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            68999999999999999999863

>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=93.15  E-value=0.026  Score=48.70  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998774

>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=93.13  E-value=0.024  Score=45.86  Aligned_cols=20  Identities=35%  Similarity=0.328  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |++.|.+|+|||||...+..
T Consensus         8 i~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999998875

>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=93.05  E-value=0.025  Score=45.67  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.|.|.+|+|||+|+..+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999876

>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=93.05  E-value=0.025  Score=45.62  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|.|.+|+|||+|...+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999998863

>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=93.02  E-value=0.022  Score=46.09  Aligned_cols=20  Identities=30%  Similarity=0.723  Sum_probs=18.2

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||...+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67899999999999998876

>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=93.02  E-value=0.035  Score=45.08  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=20.4

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +..--|+|.|.+|+|||||...+..
T Consensus        14 ~~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          14 DQEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhc
Confidence            3344588999999999999988865

>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=93.02  E-value=0.026  Score=45.69  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=19.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .|+|.|.+|+|||||..++..
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            589999999999999999874

>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=93.01  E-value=0.026  Score=45.72  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.|.|.+|+|||+|+..+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=93.00  E-value=0.026  Score=45.66  Aligned_cols=21  Identities=29%  Similarity=0.552  Sum_probs=18.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+|.|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999874

>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=92.92  E-value=0.024  Score=45.94  Aligned_cols=21  Identities=38%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.|.|.+|+|||+|...+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999886

>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=92.90  E-value=0.024  Score=45.53  Aligned_cols=21  Identities=24%  Similarity=0.373  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            377999999999999998865

>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=92.82  E-value=0.026  Score=45.36  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=18.4

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||+|+..+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999999886

>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=92.82  E-value=0.028  Score=45.66  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||...+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            378999999999999999875

>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=92.78  E-value=0.029  Score=45.25  Aligned_cols=20  Identities=20%  Similarity=0.453  Sum_probs=18.3

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||...+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999999886

>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=92.72  E-value=0.029  Score=45.55  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .-|.|.|++|+||||||.++..+
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            56889999999999999998864

>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=92.67  E-value=0.027  Score=45.75  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||+|+..+.+
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3578999999999999998876

>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=92.66  E-value=0.031  Score=45.06  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=18.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+|+|.+|+|||+|...+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998763

>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=92.63  E-value=0.028  Score=45.46  Aligned_cols=20  Identities=35%  Similarity=0.597  Sum_probs=18.2

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999998875

>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=92.61  E-value=0.028  Score=45.20  Aligned_cols=20  Identities=30%  Similarity=0.406  Sum_probs=18.5

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |++.|.+|+|||||...+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>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=92.61  E-value=0.026  Score=46.47  Aligned_cols=20  Identities=35%  Similarity=0.381  Sum_probs=18.2

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.|.|.+|+|||||+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            77899999999999998875

>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=92.61  E-value=0.036  Score=44.72  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .-|.|.|.+|+||||||.++..+
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            56899999999999999998875

>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=92.59  E-value=0.028  Score=48.35  Aligned_cols=24  Identities=38%  Similarity=0.605  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|.|||||.+.++..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999998863

>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=92.57  E-value=0.027  Score=48.58  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|.|||||.+.+.-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999999886

>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=92.56  E-value=0.029  Score=45.45  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|.|.|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998763

>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=92.49  E-value=0.033  Score=44.98  Aligned_cols=21  Identities=14%  Similarity=0.272  Sum_probs=18.7

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+|.|.+|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998863

>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=92.46  E-value=0.018  Score=49.49  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|+|||||.+.+..
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            36899999999999999999886

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=92.45  E-value=0.33  Score=42.25  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .-.++|+|++.+|||||+..+..
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ceEEEEEecCccchhhhhhhhhc
Confidence            45689999999999999998876

>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=92.45  E-value=0.034  Score=44.13  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=19.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|+|.|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988763

>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=92.44  E-value=0.034  Score=46.57  Aligned_cols=22  Identities=27%  Similarity=0.259  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +.|+|.|.+|+|||||...+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            3589999999999999999876

>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=92.43  E-value=0.031  Score=45.57  Aligned_cols=22  Identities=36%  Similarity=0.255  Sum_probs=19.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|.|.|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678899999999999988763

>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=92.41  E-value=0.067  Score=49.01  Aligned_cols=36  Identities=22%  Similarity=0.139  Sum_probs=26.5

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .+...+...+.     .+++.|+|++|+||||++..+...+
T Consensus       152 ~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         152 WQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             HHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHHH
Confidence            34555555554     2689999999999999987766544

>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=92.39  E-value=0.031  Score=44.98  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .-|+|.|.+|+|||+|...+.+
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4578899999999999999875

>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=92.38  E-value=0.029  Score=48.84  Aligned_cols=24  Identities=33%  Similarity=0.394  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+++|.|+.|.|||||++.++--
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            368999999999999999998864

>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=92.37  E-value=0.035  Score=44.84  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=19.0

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||+|+.++..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998876

>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=92.37  E-value=0.035  Score=45.10  Aligned_cols=20  Identities=25%  Similarity=0.393  Sum_probs=18.5

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||+..+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998876

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=92.33  E-value=0.049  Score=44.92  Aligned_cols=40  Identities=20%  Similarity=0.259  Sum_probs=32.4

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .-+..+..+|. +.++...+.|+|+++.|||.+|..+.+-+
T Consensus        38 ~Fl~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            45666777775 44667899999999999999999988865

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.32  E-value=0.037  Score=48.61  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=22.1

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      .+..|+|.+|+|||||+.+++..+.
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            4788999999999999999987764

>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=92.30  E-value=0.033  Score=45.22  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=18.4

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |++.|.+|+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=92.28  E-value=0.033  Score=44.80  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=18.9

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |.|.|.+|+|||+|...+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999998863

>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=92.28  E-value=0.041  Score=44.84  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .+.|+|.|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999863

>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=92.19  E-value=0.04  Score=44.74  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ...|+|.|.+|+|||||..++..
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhC
Confidence            56799999999999999999986

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.14  E-value=0.063  Score=45.37  Aligned_cols=32  Identities=25%  Similarity=0.516  Sum_probs=25.3

Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          152 LEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       152 l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ++.|.++|..     +..++.|.+|+|||||...+..
T Consensus        86 ~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcc
Confidence            5667777752     4778999999999999988754

>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=92.11  E-value=0.039  Score=45.26  Aligned_cols=20  Identities=35%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=92.10  E-value=0.037  Score=52.31  Aligned_cols=24  Identities=38%  Similarity=0.497  Sum_probs=21.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      .-|.+.||+|+|||-||+.++..+
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999865

>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=92.02  E-value=0.031  Score=47.88  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ..+++|.|+.|.|||||.+.++.
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            46899999999999999998876

>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=92.00  E-value=0.05  Score=44.52  Aligned_cols=22  Identities=27%  Similarity=0.190  Sum_probs=19.7

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|.|.|.+|+|||+|..++...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999998864

>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=91.98  E-value=0.042  Score=44.05  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||..++..
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            367889999999999998865

>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=91.93  E-value=0.036  Score=44.92  Aligned_cols=22  Identities=27%  Similarity=0.247  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|.|+|.+|+|||||..++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4577999999999999998875

>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=91.88  E-value=0.21  Score=42.12  Aligned_cols=22  Identities=27%  Similarity=0.212  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +++.|+|+...||||+.+.++-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            4789999999999999998875

>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=91.83  E-value=0.042  Score=44.54  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.+.|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998875

>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=91.82  E-value=0.044  Score=44.42  Aligned_cols=20  Identities=30%  Similarity=0.526  Sum_probs=18.5

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            88999999999999988876

>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=91.80  E-value=0.045  Score=44.12  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.|.|.+|+|||||+..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999875

>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=91.80  E-value=0.04  Score=45.68  Aligned_cols=21  Identities=29%  Similarity=0.374  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||+..+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhh
Confidence            378999999999999999886

>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=91.76  E-value=0.04  Score=45.24  Aligned_cols=21  Identities=29%  Similarity=0.246  Sum_probs=19.0

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |.|.|.+|+|||+|...+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            889999999999999998763

>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=91.74  E-value=0.041  Score=44.93  Aligned_cols=21  Identities=33%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |++.|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998874

>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=91.61  E-value=0.094  Score=45.55  Aligned_cols=40  Identities=20%  Similarity=0.223  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          150 SRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       150 ~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ..+.++...+.......-.|.|.|.+|+|||||...++.+
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            3444455555544344556889999999999999999863

>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=91.53  E-value=0.05  Score=44.24  Aligned_cols=20  Identities=40%  Similarity=0.493  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.|.|.+|+|||+|...+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998875

>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=91.47  E-value=0.051  Score=43.84  Aligned_cols=21  Identities=29%  Similarity=0.559  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |.+.|.+|+|||+|...+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998863

>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=91.47  E-value=0.044  Score=45.04  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.+.|.+|+|||+|..++..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            378999999999999988764

>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=91.44  E-value=0.045  Score=45.33  Aligned_cols=19  Identities=32%  Similarity=0.480  Sum_probs=17.4

Q ss_pred             EEEEeCCCCCChhHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVV  186 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~  186 (483)
                      -|.|.|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3779999999999999988

>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=91.37  E-value=0.046  Score=43.52  Aligned_cols=21  Identities=24%  Similarity=0.271  Sum_probs=18.8

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            377999999999999999875

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.32  E-value=0.1  Score=45.47  Aligned_cols=40  Identities=15%  Similarity=0.131  Sum_probs=31.8

Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHh
Q 038919          151 RLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLI  190 (483)
Q Consensus       151 ~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  190 (483)
                      -+..+..+|....+....+.++|+|+.|||+++..+.+-+
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445666776555667899999999999999999988865

>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=91.27  E-value=0.049  Score=44.95  Aligned_cols=21  Identities=29%  Similarity=0.221  Sum_probs=18.6

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |++.|.+|+|||+|...+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988763

>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=91.16  E-value=0.047  Score=44.52  Aligned_cols=21  Identities=29%  Similarity=0.271  Sum_probs=19.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .|+|+|.+|+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999875

>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=91.07  E-value=0.038  Score=45.08  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=18.4

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>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=91.06  E-value=0.041  Score=45.09  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.+++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999988754

>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=90.91  E-value=0.061  Score=43.71  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|++.|.+|+|||+|...+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988763

>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=90.77  E-value=0.029  Score=45.45  Aligned_cols=20  Identities=35%  Similarity=0.514  Sum_probs=17.2

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |+|.|.+|+|||+|..++.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77889999999999988765

>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=90.50  E-value=0.063  Score=44.26  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.2

Q ss_pred             EEEEeCCCCCChhHHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      -|.|.|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=90.35  E-value=0.11  Score=46.75  Aligned_cols=29  Identities=31%  Similarity=0.310  Sum_probs=24.7

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHHHhhccc
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYDLISHEF  194 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  194 (483)
                      +-.|.|-|+-|+||||+++.+.+.+....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            34688899999999999999999877654

>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=90.35  E-value=0.044  Score=44.74  Aligned_cols=23  Identities=35%  Similarity=0.304  Sum_probs=19.1

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .--|.|.|.+|+|||||...+..
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34577999999999999988754

>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=90.13  E-value=0.051  Score=44.24  Aligned_cols=25  Identities=12%  Similarity=0.173  Sum_probs=21.1

Q ss_pred             CCcEEEEEeCCCCCChhHHHHHHHH
Q 038919          164 NDVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       164 ~~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +....|+|.|.+++|||||..++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3467899999999999999987753

>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=90.09  E-value=0.048  Score=44.10  Aligned_cols=21  Identities=29%  Similarity=0.273  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|.|.|.+|+|||||...+.+
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            367899999999999998875

>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=90.02  E-value=0.078  Score=43.28  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||..++..
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            3478999999999999999885

>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=90.00  E-value=0.048  Score=44.17  Aligned_cols=20  Identities=25%  Similarity=0.333  Sum_probs=8.3

Q ss_pred             EEEeCCCCCChhHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~  188 (483)
                      |.|.|.+|+|||||...+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77889999999999988775

>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=89.57  E-value=0.086  Score=44.60  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .-|.|.|.+|+|||||..++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999988754

>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=89.28  E-value=0.042  Score=43.72  Aligned_cols=21  Identities=29%  Similarity=0.358  Sum_probs=19.2

Q ss_pred             EEEeCCCCCChhHHHHHHHHH
Q 038919          169 IGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       169 v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+|.|.+|+|||||...+...
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            789999999999999998864

>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=89.17  E-value=0.13  Score=46.18  Aligned_cols=33  Identities=24%  Similarity=0.188  Sum_probs=26.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          168 MIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      .|.|-|.=|+||||+++.+.+.+..+-....++
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            488999999999999999999876554444444

>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=88.04  E-value=0.13  Score=45.03  Aligned_cols=24  Identities=33%  Similarity=0.299  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +.|-|+|.|..|.|||||+.++..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            467899999999999999998875

>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=86.53  E-value=0.2  Score=43.47  Aligned_cols=23  Identities=35%  Similarity=0.583  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCCChhHHHHHHHH
Q 038919          166 VRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       166 ~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      .|-|+|.|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            36799999999999999998864

>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=86.24  E-value=0.18  Score=44.56  Aligned_cols=21  Identities=5%  Similarity=0.139  Sum_probs=17.1

Q ss_pred             CCeEEccHHHHHHHHHHHhhh
Q 038919          438 SDRLWMHDLLLEMGRQIVRRQ  458 (483)
Q Consensus       438 ~~~~~mH~lvr~~~~~~~~~~  458 (483)
                      ...|+.|+-|-++|-.++...
T Consensus       273 ~~nyRs~~~I~~~an~l~~~n  293 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIANN  293 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHTS
T ss_pred             CCCCCCCHHHHHHHHHHHHcC
Confidence            345899999999999988753

>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=86.12  E-value=0.74  Score=30.99  Aligned_cols=65  Identities=17%  Similarity=0.050  Sum_probs=50.9

Q ss_pred             HHHhhhhcCCCCCCHHHHHHHHHhCCCChhhhHHHHhhCCceeEecCCeEEccHHHHHHHHHHHh
Q 038919          392 EIFLDVACFFKGEKRDYVSKILDSCGFEPVIGIGVLIEKSLLTICESDRLWMHDLLLEMGRQIVR  456 (483)
Q Consensus       392 ~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~~~~mH~lvr~~~~~~~~  456 (483)
                      +++..++--+.+.+...+.+..+.+.......+..|.+.|+++..++|+|.+=+-+-++|...++
T Consensus         9 ~IL~~~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~   73 (75)
T d1mkma1           9 EILDFIVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLR   73 (75)
T ss_dssp             HHHHHHHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHh
Confidence            45556666667788888888776655566778999999999999888899998877888877665

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=85.84  E-value=0.28  Score=37.43  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCCChhHHHHHHHH
Q 038919          165 DVRMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       165 ~~~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +.++..|+++.|.|||+++..++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            468889999999999998876654

>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=84.68  E-value=0.24  Score=44.13  Aligned_cols=21  Identities=5%  Similarity=0.215  Sum_probs=17.6

Q ss_pred             CeEEccHHHHHHHHHHHhhhC
Q 038919          439 DRLWMHDLLLEMGRQIVRRQS  459 (483)
Q Consensus       439 ~~~~mH~lvr~~~~~~~~~~~  459 (483)
                      ..|++|+-|.++|..++.+..
T Consensus       284 ~nyRs~~~I~~~an~ll~~~~  304 (318)
T d1pjra1         284 QNYRSTKRILQAANEVIEHNV  304 (318)
T ss_dssp             BCSSSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCcHHHHHHHHHHHHcCc
Confidence            348899999999999988755

>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=84.55  E-value=0.27  Score=41.50  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      ++|+|.|-++.|||||+..+...
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            57999999999999999888764

>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=84.44  E-value=5.4  Score=33.15  Aligned_cols=50  Identities=18%  Similarity=0.041  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHHhhcccceeEEE
Q 038919          149 ESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFL  200 (483)
Q Consensus       149 ~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  200 (483)
                      ...++++.+.+..  +......|+|..|+|||.++...+...-..-..+++.
T Consensus        61 ~~~~~~i~~~~~~--~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l  110 (233)
T d2eyqa3          61 AQAINAVLSDMCQ--PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVL  110 (233)
T ss_dssp             HHHHHHHHHHHHS--SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEE
T ss_pred             HHHHHHHHHHHhc--cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEE
Confidence            3444555555553  3445778999999999999987776554443333433

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.17  E-value=0.25  Score=45.72  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      --|+|.|.+|+|||||...+..
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            4589999999999999998874

>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=83.87  E-value=0.2  Score=44.83  Aligned_cols=25  Identities=36%  Similarity=0.344  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ..|.|-|.=|+||||+++.+.+...
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC---
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhC
Confidence            4588999999999999999987654

>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=83.65  E-value=0.41  Score=35.59  Aligned_cols=26  Identities=8%  Similarity=-0.035  Sum_probs=23.0

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhc
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISH  192 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~  192 (483)
                      -.|.++|..|.||+|||.++..++.+
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999999887754

>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=82.93  E-value=0.11  Score=42.85  Aligned_cols=25  Identities=20%  Similarity=0.218  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhh
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLIS  191 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~  191 (483)
                      ++.+|+|+.|+||||+..++..-+.
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            3567899999999999999987543

>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=82.84  E-value=1.5  Score=35.45  Aligned_cols=36  Identities=19%  Similarity=-0.018  Sum_probs=23.0

Q ss_pred             hhHHHHHHHHHhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          148 IESRLEKLKFLMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       148 R~~~l~~l~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      |+-+.+.+..+.. .    . +.|+++.|.|||..+..++..
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            4555555555443 1    1 457899999999877655543

>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=82.73  E-value=0.12  Score=43.82  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      +..++.|.+|+|||||...+..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCccHHHHHHhhcc
Confidence            3556889999999999988764

>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=82.58  E-value=0.31  Score=39.32  Aligned_cols=21  Identities=43%  Similarity=0.673  Sum_probs=19.1

Q ss_pred             EEEEeCCCCCChhHHHHHHHH
Q 038919          168 MIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       168 ~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      -|+|.|.++.|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998874

>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=81.56  E-value=0.52  Score=41.01  Aligned_cols=32  Identities=19%  Similarity=0.227  Sum_probs=25.5

Q ss_pred             HhhcCCCCcEEEEEeCCCCCChhHHHHHHHHH
Q 038919          158 LMGAGCNDVRMIGIWGMGGLGKTTLARVVYDL  189 (483)
Q Consensus       158 ~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  189 (483)
                      .|..-...+.+|+|.|+.+.|||+|+..++..
T Consensus        24 ~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            33433445889999999999999999998863

>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=80.58  E-value=0.41  Score=42.15  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCCChhHHHHHHHH
Q 038919          167 RMIGIWGMGGLGKTTLARVVYD  188 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~  188 (483)
                      ++.+|+|+.|+|||++..++.-
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4789999999999999888754

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=80.09  E-value=0.67  Score=43.05  Aligned_cols=35  Identities=23%  Similarity=0.211  Sum_probs=24.8

Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHhhcccceeEEEEe
Q 038919          167 RMIGIWGMGGLGKTTLARVVYDLISHEFDGSSFLAD  202 (483)
Q Consensus       167 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~  202 (483)
                      +-+.|.|.+|+|||+++..+..+.... ...+++.+
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~-g~~~iiiD   85 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLR-GDRMVIVD   85 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHT-TCEEEEEE
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhC-CCCEEEEe
Confidence            458999999999999988777665443 23344443