Citrus Sinensis ID: 015918

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------40
Protein Sequence
MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Secondary Structure (PSIPRED)
ccHHHHHHHHHHccccEEccccccHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHHHccccccccccccHHHHHcccHHHHHHHHHHHHHccccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccHHEcccccccccHHHHHHHHHHHHcccccHHHHHHHHHccccccccccHHHHHHcccccccHHHHHHHHHHccccccccHHHHHccccEEEEcccEEEccHHHHHHHHHHHHHccccccccccccccccHHHHHHccccccccEEEEEcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHccEEEEEcccccEEHHHHHHHHcHHHHEccccccccccEEEccHHHHHHHHHccccccEEEEEEEc
Coil and Loop (DISEMBL)
MQRWRSALTEVanlsgfnshvirpesKLIEEIVSEVLERLDDTfetenklvgvDSRIEEILSLLGVgltmdtcklgiwgiggvgkTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLndgnmnkfpniglnfqskrltrkKVLIVfddvnhprQIEFLIgnldwfasgsriLITARDKQALINCGVNKIYQIKELVHVDALKLLnqcafgrdhpdasYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISydglddkekNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVrqesindpskrsrlwHHKEIYEVLTENmvsnydfasyfi
Flexible Loop (DISEMBL)
MQRWRSALTevanlsgfnshvirpeskLIEEIVSEVLErlddtfetenklvgvdsrIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLlndgnmnkfpniglnfqskrlTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAisklemvpqmeIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATsgievlvdkSLITISEYNKIRMHDLMRNMGREIVRQesindpskrsrlwHHKEIyevltenmvsnYDFASYFI
Low Complexity Region (SEG)
MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Disordered region (IsUnstruct)
*********EVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIV************RLWHHKEIYEVLTENMVSNYDFASYF*
Disordered Region (DISOPRED)
MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Disordered Region (DISEMBL)
********TEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Disordered Region (DISPRO)
MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENMVSNYDFASYFI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	398	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.952	0.331	0.395	7e-73
Q9FL92	1372	Probable WRKY transcripti	no	no	0.919	0.266	0.389	5e-60
O82500	1095	Putative disease resistan	no	no	0.952	0.346	0.363	7e-58
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.937	0.196	0.349	3e-56
Q9FH83	1288	Probable WRKY transcripti	no	no	0.866	0.267	0.370	1e-51
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.929	0.284	0.339	3e-51
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.924	0.228	0.353	5e-51
Q9XIF0	906	Putative disease resistan	no	no	0.748	0.328	0.260	1e-13
Q9FLB4	874	Putative disease resistan	no	no	0.771	0.351	0.273	1e-12
Q7XA40	992	Putative disease resistan	N/A	no	0.663	0.266	0.287	4e-11

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

 Score =  274 bits (701), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 156/394 (39%), Positives = 244/394 (61%), Gaps = 15/394 (3%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDD-TFETENKLVGVDSRIEE 59
           +QRWR AL E ANL G   +  + ++  I +IV ++  +L   +      +VG+D+ +E+
Sbjct: 138 IQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKISLSYLQNIVGIDTHLEK 197

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI------SRRFEGSYFAHNVREAE 113
           I SLL +G+      +GIWG+GGVGKT IA A F  +      S +F+G+ F  +++E +
Sbjct: 198 IESLLEIGIN-GVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKENK 256

Query: 114 ETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDV-NHPRQIEFLI 172
               +  L+  LLS LL +         G +  + RL  KKVLIV DD+ N    +E+L 
Sbjct: 257 RG--MHSLQNALLSELLREKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLA 314

Query: 173 GNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYI 232
           G+LDWF +GSRI+IT RDK  +    +  IY++  L   ++++L  Q AFG++ P+ ++ 
Sbjct: 315 GDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVPNENFE 372

Query: 233 ELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDD 292
           +L+ E + YA+G+P+ALK+ G  L   R   W++AI  ++      I + LKISYDGL+ 
Sbjct: 373 KLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEP 432

Query: 293 KEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMR 352
           K++ +FLDIACFL GE++D + + L +C   A  G+ +L+DKSL+ ISEYN+++MHDL++
Sbjct: 433 KQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQ 492

Query: 353 NMGREIVRQESINDPSKRSRLWHHKEIYEVLTEN 386
           +MG+ IV  +   DP +RSRLW  KE+ EV++ N
Sbjct: 493 DMGKYIVNFQ--KDPGERSRLWLAKEVEEVMSNN 524

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

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

 Score =  231 bits (590), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 151/388 (38%), Positives = 224/388 (57%), Gaps = 22/388 (5%)

Query: 4   WRSALTEVANLSGFNS-HVIRPE---SKLIEEIVSEVLERLDDTFETENKLVGVDSRIEE 59
           W SAL    +  GF+S H  R E   S+L++E V +V E+L   F  E   +G+ S++ E
Sbjct: 101 WLSAL----DSKGFSSVHHSRKECSDSQLVKETVRDVYEKL---FYMER--IGIYSKLLE 151

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREA-EETGKL 118
           I  ++     +D   +GIWG+ G+GKT +A A F ++S  F+   F  +  +A +E G  
Sbjct: 152 IEKMIN-KQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVY 210

Query: 119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
             L ++ L    N G       + L     RL  K+VL+V DDV  P  +E  +G  DWF
Sbjct: 211 CLLEEQFLKE--NAGASGTVTKLSL--LRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWF 266

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
              S I+IT++DK     C VN+IY+++ L   +AL+L + CA   D  + +  E++ + 
Sbjct: 267 GPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKV 326

Query: 239 IKYAQGVPIALKILGRFLF-RKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNI 297
           IKYA G P+AL + GR L  +KR    E A  KL+  P     + +K SYD L+D+EKNI
Sbjct: 327 IKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLKECPPAIFVDAIKSSYDTLNDREKNI 386

Query: 298 FLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGRE 357
           FLDIACF  GE+ D V + L  C FF   GI+VLV+KSL+TISE N++RMH+L++++GR+
Sbjct: 387 FLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQ 445

Query: 358 IVRQESINDPSKRSRLWHHKEIYEVLTE 385
           I+ +E+     +RSRLW    I  +L +
Sbjct: 446 IINRET-RQTKRRSRLWEPCSIKYLLED 472

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  224 bits (572), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 142/391 (36%), Positives = 224/391 (57%), Gaps = 12/391 (3%)

Query: 4   WRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEEILS 62
           WR ALT+ AN+ G +      E+  I  I  +VLE+L+ T   + N LVG+++ I ++ S
Sbjct: 137 WRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRDFNDLVGMEAHIAKMES 196

Query: 63  LLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD-- 120
           LL +  +     +GIWG  GVGKT IA A +++    F  S F  NVRE+     L D  
Sbjct: 197 LLCLE-SQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYG 255

Query: 121 ----LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLD 176
               L++  LS LL+  ++ +  ++G     +RL  +KVLI+ DDV++  Q++ L     
Sbjct: 256 LKLHLQQRFLSKLLDQKDL-RVRHLGA--IEERLKSQKVLIILDDVDNIEQLKALAKENQ 312

Query: 177 WFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTH 236
           WF + SRI++T ++KQ L++  +N +YQ+      +AL +  Q AF +  P      L  
Sbjct: 313 WFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAI 372

Query: 237 EAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKN 296
           E    A  +P+AL++LG F+  K KE WE ++  L+     E+++VLK+ YDGL D EK+
Sbjct: 373 EFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKD 432

Query: 297 IFLDIACFLVGEDRDIVTKYLNA-CEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMG 355
           +FL IAC   G+  + + + + A  + + + G++VL DKSLI   E  +I MH L+R +G
Sbjct: 433 LFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLG 492

Query: 356 REIVRQESINDPSKRSRLWHHKEIYEVLTEN 386
           +E+VR++SI +P KR  L + KE   VL+ N
Sbjct: 493 KEVVRKQSIYEPGKRQFLMNAKETCGVLSNN 523

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 (558), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 134/383 (34%), Positives = 219/383 (57%), Gaps = 10/383 (2%)

Query: 2    QRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEIL 61
            ++W++AL E+  + G+ +   + ES+LI+EIV + L+ L    +    ++G+D ++EEIL
Sbjct: 771  KKWQAALKEITQMPGY-TLTDKSESELIDEIVRDALKVLCSADKV--NMIGMDMQVEEIL 827

Query: 62   SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL 121
            SLL +  ++D   +GIWG  G+GKT IA   F KIS ++E      ++ +  E      +
Sbjct: 828  SLLCIE-SLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGHDAV 886

Query: 122  RKELLSTLLN-DGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFAS 180
            R+  LS +L  + ++ +  +I  +F   RL RK++L++ DDVN  R ++  +G L++F  
Sbjct: 887  RENFLSEVLEVEPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGP 946

Query: 181  GSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIK 240
            GSRI++T+R+++  + C ++ +Y++K L    +L LL++           Y  L+ E +K
Sbjct: 947  GSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVK 1006

Query: 241  YAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLD 300
            ++ G P  L+    FL    +E W     +++    + I  + + S  GLDD E+ IFLD
Sbjct: 1007 FSNGNPQVLQ----FLSSIDRE-WNKLSQEVKTTSPIYIPGIFEKSCCGLDDNERGIFLD 1061

Query: 301  IACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVR 360
            IACF    D+D V   L+ C F A  G   LVDKSL+TIS++N + M   ++  GREIVR
Sbjct: 1062 IACFFNRIDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGREIVR 1121

Query: 361  QESINDPSKRSRLWHHKEIYEVL 383
            QES + P  RSRLW+   I  V 
Sbjct: 1122 QESADRPGDRSRLWNADYIRHVF 1144

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

 Score =  204 bits (519), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 136/367 (37%), Positives = 202/367 (55%), Gaps = 22/367 (5%)

Query: 25  ESKLIEEIVSEVLERLDDTFETENKL--VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGG 82
           +S L+EEIV        D +ET   +  +G+ S++ EI +++        C +GIWG+ G
Sbjct: 131 DSILVEEIVR-------DVYETHFYVGRIGIYSKLLEIENMVNKQPIGIRC-VGIWGMPG 182

Query: 83  VGKTAIAGAFFSKISRRFEGSYFAHNV-REAEETGKLADLRKELLSTLLNDGNMNKFPNI 141
           +GKT +A A F ++S  F+ S F  +  +   E G    L ++LL    ND  + K  ++
Sbjct: 183 IGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYCLLEEQLLPG--NDATIMKLSSL 240

Query: 142 GLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNK 201
                  RL  K+VL+V DDV +    E  +   DW   GS I+IT+RDKQ    CG+N+
Sbjct: 241 -----RDRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQ 295

Query: 202 IYQIKELVHVDALKL-LNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKR 260
           IY+++ L   +A +L L   +   D  + +  EL+   I YA G P+A+ + GR L  K+
Sbjct: 296 IYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKK 355

Query: 261 K-EVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNA 319
           K    E A  KL+  P  +I +  K +YD L D EKNIFLDIACF  GE+ + V + L  
Sbjct: 356 KLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEG 415

Query: 320 CEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEI 379
           C FF    I+VLVDK L+TISE N++ +H L +++GREI+  E++    +R RLW    I
Sbjct: 416 CGFFPHVEIDVLVDKCLVTISE-NRVWLHKLTQDIGREIINGETVQI-ERRRRLWEPWSI 473

Query: 380 YEVLTEN 386
             +L  N
Sbjct: 474 KYLLEYN 480

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  202 bits (515), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 133/392 (33%), Positives = 215/392 (54%), Gaps = 22/392 (5%)

Query: 2   QRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEIL 61
           Q W+ AL  VA ++G++      E+ +IEE+  +VL +     +    LVG+++ IE I 
Sbjct: 135 QSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTPSDDFGDLVGIENHIEAIK 194

Query: 62  SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA--HNVREAEETGKLA 119
           S+L +        +GIWG  G+GK+ I  A +SK+S +F    F    +   ++ +G   
Sbjct: 195 SVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITYKSTSGSDVSGMKL 254

Query: 120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFA 179
              KELLS +L   ++ K  + G+  Q  RL ++KVLI+ DDV+    ++ L+G  +WF 
Sbjct: 255 RWEKELLSEILGQKDI-KIEHFGVVEQ--RLKQQKVLILLDDVDSLEFLKTLVGKAEWFG 311

Query: 180 SGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAI 239
           SGSRI++  +D+Q L    ++ IY+++      AL +L + AFG+D P   + EL  E  
Sbjct: 312 SGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAFEVA 371

Query: 240 KYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQM------EIQEVLKISYDGLDDK 293
           K A  +P+ L +LG  L  + KE W      +EM+P++      +I + L++SYD L  K
Sbjct: 372 KLAGNLPLGLSVLGSSLKGRTKEWW------MEMMPRLRNGLNGDIMKTLRVSYDRLHQK 425

Query: 294 EKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRN 353
           ++++FL IAC   G +   V   L         G  +L +KSLI I+    I MH+L+  
Sbjct: 426 DQDMFLYIACLFNGFEVSYVKDLLK-----DNVGFTMLTEKSLIRITPDGYIEMHNLLEK 480

Query: 354 MGREIVRQESINDPSKRSRLWHHKEIYEVLTE 385
           +GREI R +S  +P KR  L + ++I+EV+TE
Sbjct: 481 LGREIDRAKSKGNPGKRRFLTNFEDIHEVVTE 512

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

 Score =  202 bits (513), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 136/385 (35%), Positives = 209/385 (54%), Gaps = 17/385 (4%)

Query: 4   WRSALTEVANLSGFNSHVIR----PESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEE 59
           W ++  E   L+   S ++      +S+L+EEIV +V  +L   +  E   VG+ +R+ E
Sbjct: 123 WANSWLEAEKLTSHQSKILSNNVLTDSELVEEIVRDVYGKL---YPAER--VGIYARLLE 177

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA 119
           I  LL      D   +GIWG+ G+GKT +A A F+ +S  ++ S F  N  EA     L 
Sbjct: 178 IEKLL-YKQHRDIRSIGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEGLH 236

Query: 120 DLRKELLSTLLNDG-NMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
            L KE +  +L D  ++     +       +L  K++L+V DDV      E  +  LDWF
Sbjct: 237 RLLKERIGKILKDEFDIESSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWF 296

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
            SGS I+IT+ DKQ    C +N+IY ++ L   +AL+L +Q  FG + P+ +  +L+ + 
Sbjct: 297 GSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKV 356

Query: 239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
           I Y  G P+AL I GR L  K+ E+ E A  +L+  P ++IQ+VLK +Y  L D EKNI 
Sbjct: 357 IDYVNGNPLALSIYGRELMGKKSEM-ETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIV 415

Query: 299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
           LDIA F  GE  + V + L    +F    I+VLVDK ++TISE N ++M++L+++  +EI
Sbjct: 416 LDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTISE-NTVQMNNLIQDTCQEI 474

Query: 359 VRQESINDPSKRSRLWHHKEIYEVL 383
              E        +R+W    I  +L
Sbjct: 475 FNGEI----ETCTRMWEPSRIRYLL 495

Arabidopsis thaliana (taxid: 3702)

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

 Score = 78.2 bits (191), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 101/387 (26%), Positives = 175/387 (45%), Gaps = 89/387 (22%)

Query: 45  ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFS--KISRRFEG 102
           E+E+ LVG++  +E+++  L VG    +  + I G+GG+GKT +A   F   K+   F+G
Sbjct: 155 ESESNLVGLEKNVEKLVEEL-VG-NDSSHGVSITGLGGLGKTTLARQIFDHDKVKSHFDG 212

Query: 103 SYFAHNVREAEETGKLADLRKELLSTLLNDGNMN-KFPNIGL---NFQSKR---LTRKKV 155
             +    +E          RK++  T+L  GN++ K+ +  L   + Q K    L  KK 
Sbjct: 213 LAWVCVSQEFT--------RKDVWKTIL--GNLSPKYKDSDLPEDDIQKKLFQLLETKKA 262

Query: 156 LIVFDDVNHPRQIEFLIGNLDWF---------ASGSRILITARDKQALINCGVNKIYQIK 206
           LIVFDD         L    DW+          +G ++L+T+R+     +C     ++ +
Sbjct: 263 LIVFDD---------LWKREDWYRIAPMFPERKAGWKVLLTSRNDAIHPHCVT---FKPE 310

Query: 207 ELVHVDALKLLNQCAFGRDHPDASYI------ELTHEAIKYAQGVPIALKILGRFL---- 256
            L H +  KLL + AF +      YI      ++  E  K+ + +P+A+K+LG  L    
Sbjct: 311 LLTHDECWKLLQRIAFSKQKTITGYIIDKEMVKMAKEMTKHCKRLPLAVKLLGGLLDAKH 370

Query: 257 -FRKRKEVWENAISKLEMV-------PQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGE 308
             R+ K + EN IS + +            +  VL +S++GL    K+  L +A +   E
Sbjct: 371 TLRQWKLISENIISHIVVGGTSSNENDSSSVNHVLSLSFEGLPGYLKHCLLYLASY--PE 428

Query: 309 DRDIVTK---YLNACEFFATSG--------------IEVLVDKSLIT------ISEYNKI 345
           D +I  +   Y+ A E     G              IE LV ++++        S + K 
Sbjct: 429 DHEIEIERLSYVWAAEGITYPGNYEGATIRDVADLYIEELVKRNMVISERDALTSRFEKC 488

Query: 346 RMHDLMRNMGREIVRQES----INDPS 368
           ++HDLMR +     ++E+    + DP+
Sbjct: 489 QLHDLMREICLLKAKEENFLQIVTDPT 515

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 74.7 bits (182), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 94/344 (27%), Positives = 157/344 (45%), Gaps = 37/344 (10%)

Query: 33  VSEVLERLDDTFETENKLVGVDSRIEEIL-SLLGVGLTMDTCKLGIWGIGGVGKTAIAGA 91
           + +V ERL   F  E  +VG ++ +E    S++ VG+ +    LGI+G+GGVGKT +   
Sbjct: 144 IPKVEERL---FHQE--IVGQEAIVESTWNSMMEVGVGL----LGIYGMGGVGKTTLLSQ 194

Query: 92  F---FSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK 148
               F  +S  F+ + +    +         D+ K L   L N+G   K  N   +   +
Sbjct: 195 INNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRL--DLYNEGWEQKTENEIASTIKR 252

Query: 149 RLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKEL 208
            L  KK +++ DD+     +   IG      +GS+I  T+R  +     GV+K  ++  L
Sbjct: 253 SLENKKYMLLLDDMWTKVDLAN-IGIPVPKRNGSKIAFTSRSNEVCGKMGVDKEIEVTCL 311

Query: 209 VHVDALKLL--NQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRK-EVWE 265
           +  DA  L   N       HP     E+     +   G+P+AL ++G  + RK+  E W 
Sbjct: 312 MWDDAWDLFTRNMKETLESHPKIP--EVAKSIARKCNGLPLALNVIGETMARKKSIEEWH 369

Query: 266 NAISKLEMVPQMEIQEVLKISYDGLD-DKEKNIFLDIACFL----VGEDRDIVTKYLNAC 320
           +A+     + + +I  +LK SYD L  +K K+ FL  A F     +G+D D++  ++   
Sbjct: 370 DAVGVFSGI-EADILSILKFSYDDLKCEKTKSCFLFSALFPEDYEIGKD-DLIEYWVGQG 427

Query: 321 EFFATSGIE--------VLVDKSLITISEYN-KIRMHDLMRNMG 355
               + GI          L    L+  SE   K++MHD++R M 
Sbjct: 428 IILGSKGINYKGYTIIGTLTRAYLLKESETKEKVKMHDVVREMA 471

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score = 69.3 bits (168), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 83/289 (28%), Positives = 132/289 (45%), Gaps = 25/289 (8%)

Query: 46  TENKLVGVDSRIEEILSLL--GVGLTMDTCKLGIWGIGGVGKTAIAGAFFS--KISRRFE 101
           TE K+ G +   +EI+ +L   V  + +   L I G+GG+GKT +A   F+  +I+  F 
Sbjct: 147 TEPKVYGREKEEDEIVKILINNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEHFN 206

Query: 102 GSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR----KKVLI 157
              +     + +E        K L+  ++         ++ L    K+L      K+  +
Sbjct: 207 LKIWVCVSDDFDE--------KRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFL 258

Query: 158 VFDDVNHPRQIEF--LIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALK 215
           V DDV +  Q ++  L   L   ASG+ ILIT R ++     G  ++YQ+  L   D   
Sbjct: 259 VLDDVWNEDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWL 318

Query: 216 LLNQCAFG-RDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEV-WENAI-SKLE 272
           L  Q AF  +       +E+  E +K   GVP+A K LG  L  KR+E  WE+   S++ 
Sbjct: 319 LFKQRAFCHQTETSPKLMEIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIW 378

Query: 273 MVPQME--IQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNA 319
            +PQ E  +   L++SY  L    +  F   A F   +D  I  +YL A
Sbjct: 379 NLPQDENSVLPALRLSYHHLPLDLRQCFAYCAVF--PKDTKIEKEYLIA 425

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 which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

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	398
255537139	1137	leucine-rich repeat-containing protein,	0.962	0.336	0.505	8e-99
359495270	1154	PREDICTED: TMV resistance protein N-like	0.962	0.331	0.485	5e-94
359486075	1291	PREDICTED: TMV resistance protein N-like	0.952	0.293	0.484	1e-93
359486073	1296	PREDICTED: TMV resistance protein N-like	0.957	0.293	0.481	2e-92
255564976	944	TMV resistance protein N, putative [Rici	0.954	0.402	0.487	2e-92
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.964	0.261	0.460	2e-92
359486071	1261	PREDICTED: TMV resistance protein N-like	0.949	0.299	0.485	2e-91
359493496	1180	PREDICTED: TMV resistance protein N-like	0.944	0.318	0.493	3e-91
255563202	1158	leucine-rich repeat containing protein,	0.959	0.329	0.483	4e-91
255544956	1403	leucine-rich repeat containing protein,	0.962	0.272	0.465	6e-91

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  367 bits (941), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 198/392 (50%), Positives = 271/392 (69%), Gaps = 9/392 (2%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE--NKLVGVDSRIE 58
           +Q+W++AL++ ANLS F+S V RPESKL++EIV   L++L  ++ ++    +VGVDSRIE
Sbjct: 133 VQKWKNALSKAANLSAFDSRVTRPESKLVDEIVMYTLKQLKQSYSSDVVEGIVGVDSRIE 192

Query: 59  EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVR-EAEETGK 117
           +I  LL +G ++D   LGIWG+GG+GKT +A A F +I+ +FEGS F  NVR   E+ G 
Sbjct: 193 QIKELLSIG-SVDVRFLGIWGMGGIGKTTLAEAVFYQIAYQFEGSCFLANVRGNFEKNGG 251

Query: 118 LADLRKELLSTLLNDGNMN-KFPNIGLNFQSKR-LTRKKVLIVFDDVNHPRQIEFLIGNL 175
           LA L++ELLS  L   +     PNIG +F  K+ L  ++VLIV DD N   Q++ L+G+ 
Sbjct: 252 LARLQEELLSKTLEKRDFKIDTPNIGYSFWVKQMLKHRRVLIVVDDANDSEQLDLLVGSH 311

Query: 176 DWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELT 235
           DWF  GSRI++T+RDKQ L    V+ IY++KELVH +AL+L NQ  F +      Y  L+
Sbjct: 312 DWFGPGSRIIVTSRDKQVLTKI-VDDIYEVKELVHHEALQLFNQTTFKKKCVPEDYSYLS 370

Query: 236 HEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEK 295
              I+YA+GVP+ALK+LG FLF K K  WE+A+ KL+  P    Q VLKISYDGLD +EK
Sbjct: 371 DLVIEYAKGVPLALKVLGSFLFGKSKTEWESALDKLKKAPHRATQNVLKISYDGLDAEEK 430

Query: 296 NIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMG 355
           NIFLDIACF  GE  ++VTK L+ C F    G+ +LVDKSLITI   +K+ MHDL++ MG
Sbjct: 431 NIFLDIACFFRGESVEMVTKILDGCGFSTKIGLCLLVDKSLITILN-DKVEMHDLLQEMG 489

Query: 356 REIVRQESINDPSKRSRLWHHKEIYEVLTENM 387
           +EIV QES   PS+R+RLW+H++I  V + N+
Sbjct: 490 KEIVLQES-KQPSQRTRLWNHEDILHVFSRNL 520

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495270|ref|XP_002276075.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  350 bits (899), Expect = 5e-94,   Method: Compositional matrix adjust.
 Identities = 190/391 (48%), Positives = 262/391 (67%), Gaps = 8/391 (2%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTF--ETENKLVGVDSRIE 58
           +Q W+ ALT+VANLSG++S   + E  LI+EIV+++L +L  T   +TEN LVG+D+R++
Sbjct: 140 VQSWKDALTQVANLSGWDSRN-KNEPLLIKEIVTDILNKLLSTSISDTEN-LVGIDARMQ 197

Query: 59  EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL 118
           EI   L +G + D   +GIWG+GG+GKT +A A + KI+ +FE   F  NV E      L
Sbjct: 198 EIEMRLCLG-SDDFLMVGIWGMGGIGKTTLARAIYRKITCQFEACCFFENVGEDLAKEGL 256

Query: 119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
             L+++ L+ LL + N+N      L     RL  KKVLIV D+VN P  ++ L+GN DWF
Sbjct: 257 IGLQQKFLAQLLEEPNLNM---KALTSIKGRLHSKKVLIVLDNVNDPIILKCLVGNYDWF 313

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
             GSRI+IT RDK+ LI+ GV   Y+ +   + +A + L   +     P   ++E++ E 
Sbjct: 314 GRGSRIIITTRDKRLLISHGVLNYYEAQRFNYDEASEFLTPYSLKHKIPCDDFMEVSKEV 373

Query: 239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
           I YAQG+P+AL++LG FLF   KE W N + KL+  P M+IQEVLK+SYDGLDDKEKNI 
Sbjct: 374 IGYAQGLPLALEVLGSFLFSMTKEEWRNQLDKLKSTPNMKIQEVLKVSYDGLDDKEKNIL 433

Query: 299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
           LDIACF  GED+D V + L+ C FF+ SGI  L+DKSL+TIS  N+I MHDL++ MGREI
Sbjct: 434 LDIACFFKGEDKDYVMEILDGCGFFSLSGIRALIDKSLVTISWSNEIMMHDLIQEMGREI 493

Query: 359 VRQESINDPSKRSRLWHHKEIYEVLTENMVS 389
           VRQ+S+ +P KRSRLW H++I  VL +N  +
Sbjct: 494 VRQQSLEEPGKRSRLWFHEDINGVLKKNTAT 524

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486075|ref|XP_002273047.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  350 bits (897), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 187/386 (48%), Positives = 262/386 (67%), Gaps = 7/386 (1%)

Query: 3   RWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEEIL 61
           +WR ALT  + LSG++S   R ESK+I+EIVS++   L+D        LVG+DS I+ ++
Sbjct: 148 KWREALTVASGLSGWDSRD-RHESKVIKEIVSKIWNELNDASSCNMEALVGMDSHIQNMV 206

Query: 62  SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL 121
           SLL +G + D   +GIWG+ G+GKT IA A + KI  +FEG  F  NVRE  +    A +
Sbjct: 207 SLLCIG-SDDVRMVGIWGMAGIGKTTIAEAVYQKICTQFEGCCFLSNVREKSQKNDPAVI 265

Query: 122 RKELLSTLLNDGNMN-KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFAS 180
           + ELLS +  +GN+N +  N G+N   K L   +VLIV DDV+ P+Q+E L GN +WF  
Sbjct: 266 QMELLSQVFWEGNLNTRIFNRGINAIKKTLHSMRVLIVLDDVDRPQQLEVLAGNHNWFGP 325

Query: 181 GSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIK 240
           GSRI+IT R+K  L++  V +IY++KEL   +A +L  Q AF    P   +++L   A+ 
Sbjct: 326 GSRIIITTREKH-LLDEKV-EIYEVKELNKDEARRLFYQHAFKYKPPAGDFVQLCDRALN 383

Query: 241 YAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLD 300
           Y +G+P+ALKILGRFL+ + K+ WE+ + KL  +P  EIQ+VL+IS+DGLDD +K+IF D
Sbjct: 384 YTKGIPLALKILGRFLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFFD 443

Query: 301 IACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVR 360
           IACF  G+D+D V K L +C+FF   GI  L+DKSL+TIS YNK+ MHDL++ MG EIVR
Sbjct: 444 IACFFKGQDKDYVIKLLKSCDFFPEIGIRNLIDKSLVTIS-YNKLCMHDLIQEMGWEIVR 502

Query: 361 QESINDPSKRSRLWHHKEIYEVLTEN 386
           QES+ DP KRSRLW + ++ ++LT N
Sbjct: 503 QESMKDPGKRSRLWVNDDVIDMLTTN 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486073|ref|XP_002272820.2| PREDICTED: TMV resistance protein N-like, partial [Vitis vinifera]

 Score =  345 bits (886), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 187/388 (48%), Positives = 261/388 (67%), Gaps = 7/388 (1%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEE 59
           + +WR ALT V+ LSG++S     ES+ I+EIVS++ + L+D        LVG+DS I++
Sbjct: 151 VSKWREALTAVSGLSGWDSRN-EHESEFIKEIVSKIWKELNDASSCNMEALVGMDSHIQK 209

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA 119
           + SLL +G + D   +GIWG+ G+GKT IA A + KI  +FEG  F  NVRE  +    A
Sbjct: 210 MFSLLRIG-SDDVRMVGIWGMAGIGKTTIAEAVYQKIRTQFEGCCFLSNVREKSQNNDPA 268

Query: 120 DLRKELLSTLLNDGNMNK-FPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
            ++ +LLS +   GN+N    + G+N   K L   +VLIV DDV+ P+Q+E L GN +WF
Sbjct: 269 VIQMKLLSQIFEKGNLNTGLLSGGINVIEKTLHSMRVLIVLDDVDCPQQLEVLAGNHNWF 328

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
             GSRI+IT R+K  L++  V +IY +KEL   +A KL  Q AF    P   +++L   A
Sbjct: 329 GPGSRIIITTREKH-LLDEKV-EIYIVKELNKDEARKLFYQHAFKYKPPAGDFVQLCDRA 386

Query: 239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
           + Y +G+P+ALKILGRFL+ + K+ WE+ + KL  +P  EIQ+VL+IS+DGLDD +K+IF
Sbjct: 387 LNYTKGIPLALKILGRFLYNRSKKEWESELEKLRRIPNNEIQDVLRISFDGLDDNQKDIF 446

Query: 299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
           LDIACF  G+D+D V K L +C+FF   GI  L+DKSL+TIS YNK+ MHDL++ MG EI
Sbjct: 447 LDIACFFKGQDKDYVIKLLKSCDFFPEIGIRNLIDKSLVTIS-YNKLCMHDLIQKMGWEI 505

Query: 359 VRQESINDPSKRSRLWHHKEIYEVLTEN 386
           VRQESI DP KRSRLW + ++ ++LT N
Sbjct: 506 VRQESIKDPGKRSRLWVNDDVIDMLTTN 533

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564976|ref|XP_002523481.1| TMV resistance protein N, putative [Ricinus communis] gi|223537309|gb|EEF38940.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  345 bits (885), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 189/388 (48%), Positives = 264/388 (68%), Gaps = 8/388 (2%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDD-TFETENK-LVGVDSRIE 58
           +Q+WR+ALTE AN+SG++S VIR ESKLI+EI  ++L++L+  +  T++K LVG++SRI+
Sbjct: 141 LQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTDSKGLVGINSRID 200

Query: 59  EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL 118
           +I  LL V L  D   LG+WG+GG GKT  A   F++IS +F+   F  NV E  E   L
Sbjct: 201 KIELLLCVELA-DVRFLGLWGMGGAGKTTTAEVVFNRISTQFDSCCFLANVNEESERYGL 259

Query: 119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
             L+++L S LL   N+N    I   F   RL  +KVLIV DDVN+ RQ+E L G  +WF
Sbjct: 260 LKLQRQLFSKLLGQDNVNYAEGI---FDKSRLKHRKVLIVLDDVNNLRQLENLAGEHNWF 316

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
             GSRI++T+RDK  L N   + IY+I++L H +AL+L +  AF ++ P A Y++L+   
Sbjct: 317 GPGSRIILTSRDKDVLKN-KTDAIYKIEDLDHHEALQLFSLNAFRQECPKADYMKLSKRV 375

Query: 239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
           I YA+G P+ LK+LG FL+++  + WE+A+ KLE     EIQ VLK+SYDGLDD+EK+IF
Sbjct: 376 INYAKGNPLGLKVLGSFLYQRNIKEWESALHKLERSTNKEIQNVLKVSYDGLDDEEKDIF 435

Query: 299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
           LD+ACF  GEDRD VT+ LN C F A   I VLV KSL+TIS  N + +H+L++ MG  I
Sbjct: 436 LDVACFFNGEDRDFVTRILNGCGFSADIAISVLVSKSLLTISN-NTLAIHNLLQQMGWGI 494

Query: 359 VRQESINDPSKRSRLWHHKEIYEVLTEN 386
           VRQES  +P +RSRL   +++  VL++N
Sbjct: 495 VRQESTKEPGRRSRLCTSEDVVHVLSKN 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127917|ref|XP_002329209.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870990|gb|EEF08121.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  345 bits (885), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 179/389 (46%), Positives = 265/389 (68%), Gaps = 5/389 (1%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENK-LVGVDSRIEE 59
           + RWR+ LT  AN+SG++S V RPES L+E+IV  +L++L+    ++ K LVG+DSR+E+
Sbjct: 138 VPRWRADLTSAANISGWDSQVTRPESSLVEQIVHHILKKLNYASSSDLKGLVGMDSRMEQ 197

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA 119
           I + L   L  + C +GIWG+GG GKT IAG  F+KI+R +EG YF  NVRE+E+ G L 
Sbjct: 198 IEASLCTKLP-EFCFVGIWGMGGTGKTTIAGEIFNKIAREYEGHYFLANVRESEKNGGLF 256

Query: 120 DLRKELLSTLLNDGNMN-KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
            +R EL S +  + N++ + P IG  F   R+ RKK+LIVFDDVN   QIE L+G  + F
Sbjct: 257 RIRDELFSKITEEENLHIRTPRIGHPFIKDRICRKKILIVFDDVNDVDQIEMLLGGCESF 316

Query: 179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
             GSRI++T+RDKQ L     +KI++++ L H +AL L +  AF  + P  +Y+EL+  A
Sbjct: 317 GPGSRIILTSRDKQVLKK-YADKIFEVEGLNHREALHLFSLHAFKDNQPPYNYMELSVRA 375

Query: 239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
           I YA+G P+ALK+LG  LF +  + WE+A++K+E + + ++  VL+ISY+ LD +EK+IF
Sbjct: 376 INYAKGNPLALKVLGSSLFGRTTKEWESALNKVEKLTRQKVHSVLRISYEALDSEEKSIF 435

Query: 299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
           LDIACF  G   D V + L+ C F    G  VL+D+ LI IS+ +K+ MHDL++ M  ++
Sbjct: 436 LDIACFFRGHRVDFVKRILDGCGFKTDIGFSVLIDRCLIKISD-DKVEMHDLLQEMAHDV 494

Query: 359 VRQESINDPSKRSRLWHHKEIYEVLTENM 387
           VR+ES+++   +SRLW  K++Y+VLT N+
Sbjct: 495 VRKESLDELGGQSRLWSPKDVYQVLTNNL 523

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486071|ref|XP_002272667.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  342 bits (876), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 187/385 (48%), Positives = 261/385 (67%), Gaps = 7/385 (1%)

Query: 4   WRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEEILS 62
           WR ALT  +NLSG++S   + ES++I+EIVS++ ++L+D        LVG+ S I+ ++S
Sbjct: 149 WRKALTVASNLSGWDSRD-KHESEVIKEIVSKIWKKLNDASSCNMEALVGMASHIQNMVS 207

Query: 63  LLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR 122
           LL +G + D   +GIWG+ G+GKT IA A + KI  RFEG  F  NVRE  +    A ++
Sbjct: 208 LLRIG-SDDVRMVGIWGMAGIGKTTIAEAVYQKIRTRFEGCCFLSNVREKSQKNDPAVIQ 266

Query: 123 KELLSTLLNDGNMNK-FPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASG 181
            ELLS +  +GN+N    + G+N   K L   +VLIV DDV+ P+Q+E L GN +WF+ G
Sbjct: 267 MELLSQIFEEGNLNTGVLSGGINVIEKTLHSMRVLIVLDDVDCPQQLEVLAGNHNWFSPG 326

Query: 182 SRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKY 241
           SRI+IT R+K  L++  V +IY  KEL   +A KL  Q AF    P   +++L   A+ Y
Sbjct: 327 SRIIITTREKH-LLDEKV-EIYVAKELNKDEARKLFYQHAFKYKPPVGDFVQLCDRALNY 384

Query: 242 AQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDI 301
            +G+P+ALKILGRFL+ + K+ WE+ + KL  +P  EIQ+VL+IS+DGLDD +K+IFLDI
Sbjct: 385 TKGIPLALKILGRFLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFLDI 444

Query: 302 ACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQ 361
           ACF  G+D+D V K L +C+FF    I  L+DKSL+TIS YNK+ MHDL++ MG EIVRQ
Sbjct: 445 ACFFKGQDKDYVIKLLKSCDFFPEIEIRNLIDKSLVTIS-YNKLCMHDLIQEMGWEIVRQ 503

Query: 362 ESINDPSKRSRLWHHKEIYEVLTEN 386
           ESI DP KRSRLW + ++ ++LT N
Sbjct: 504 ESIKDPGKRSRLWVNDDVIDMLTTN 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493496|ref|XP_003634615.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  342 bits (876), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 190/385 (49%), Positives = 261/385 (67%), Gaps = 9/385 (2%)

Query: 3   RWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEEIL 61
           +WR ALTE A ++G+++   R ES++IE+IV+ +L    D F +  + LVG+DSR+E++L
Sbjct: 148 KWRDALTEAATIAGWDTRN-RDESEVIEQIVTRILNEPIDAFSSNMDALVGMDSRMEDLL 206

Query: 62  SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL 121
           S L +G + D   +GIWG+ G+GKT IA A + +I  +F+G  F  NVRE  +   L  L
Sbjct: 207 SRLCIG-SDDVRFVGIWGMAGIGKTTIAEAIYDRIYTKFDGCCFLKNVREDSQRHGLTYL 265

Query: 122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASG 181
           ++ LLS +L  G +N   N G+NF   RL  K+VLIV DDV H +Q+E L GN DWF SG
Sbjct: 266 QETLLSQVL--GGINNL-NRGINFIKARLRPKRVLIVLDDVVHRQQLEALAGNHDWFGSG 322

Query: 182 SRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKY 241
           SRI+IT R+K+ LI   V++IY++++L + +ALKL  Q AF   HP   +++L H A+ Y
Sbjct: 323 SRIIITTREKRLLIEQEVDEIYKVEKLEYDEALKLFCQYAFRYKHPTEDFMQLCHHAVDY 382

Query: 242 AQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDI 301
             G+P+ALK+LG  L+RK    W++ + KL   P  E+  VLK S+DGLDD EKN+FLDI
Sbjct: 383 TGGLPLALKVLGSCLYRKSIHEWKSELDKLNQFPNKEVLNVLKTSFDGLDDNEKNMFLDI 442

Query: 302 ACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQ 361
           A F  GED+D V + L+   FF  S I  LVDKSLITIS+ NK+ MHDL++ MG EIVRQ
Sbjct: 443 AFFYKGEDKDFVIEVLD--NFFPVSEIGNLVDKSLITISD-NKLYMHDLLQEMGWEIVRQ 499

Query: 362 ESINDPSKRSRLWHHKEIYEVLTEN 386
           ESI DP KRSRL  H++I++VLT N
Sbjct: 500 ESIKDPGKRSRLRVHEDIHDVLTTN 524

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563202|ref|XP_002522604.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223538080|gb|EEF39691.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  341 bits (874), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 188/389 (48%), Positives = 265/389 (68%), Gaps = 7/389 (1%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFET-ENKLVGVDSRIEE 59
           +QRW+ AL +  NLSG +  +IR ES+L+++IVS+V +R+     +  + LVGVD +IE 
Sbjct: 179 VQRWKVALKKAGNLSGHDLQIIRRESELVDKIVSDVWKRVKQVSPSISDCLVGVDLQIER 238

Query: 60  ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV-REAEETGKL 118
           I SLL VGL+ D   LGIWG+GG+GKT +AGA F +I+ +FEG  F  N+ +E+++ G L
Sbjct: 239 IKSLLLVGLS-DVRVLGIWGMGGIGKTTLAGAVFKQIAFQFEGCCFLSNIGKESQKCGGL 297

Query: 119 ADLRKELLSTLLNDGNMN-KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDW 177
             L +ELLS +L +  +    P+I  +   + L   +VLIV DDVN+  Q+E+  G+  W
Sbjct: 298 TRLGEELLSKVLKEREVKLNTPDIRSSHFKEMLRHNRVLIVLDDVNNIEQLEYFAGDPCW 357

Query: 178 FASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHE 237
           F SGSRI +T+RDKQ L++  V+  Y++KEL + DAL L+   AF +  P   ++ LTH 
Sbjct: 358 FGSGSRIFVTSRDKQ-LLSTTVDVTYEVKELNYEDALHLVCWNAFKQKSPLEDFVALTHL 416

Query: 238 AIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNI 297
            ++YA+G P+ALK+LG  L+ K K  W +A+ KL   P  +IQ++LK +YD LDD+E +I
Sbjct: 417 VVRYARGNPLALKVLGSMLYGKSKTEWGSALKKLTRAPHKDIQDILKFTYDNLDDEELDI 476

Query: 298 FLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGRE 357
           FL IAC    EDRD VT+ L+ C F A  GI  LVDKSL+TIS+ NK++MHDL++ MGRE
Sbjct: 477 FLHIACLFESEDRDRVTQALDGCGFSADIGISTLVDKSLLTISK-NKLKMHDLLQEMGRE 535

Query: 358 IVRQESINDPSKRSRLWHHKEIYEVLTEN 386
           IVRQES   PS+RSRLW+  +IY+VL EN
Sbjct: 536 IVRQES-KRPSERSRLWNPDDIYKVLEEN 563

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255544956|ref|XP_002513539.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223547447|gb|EEF48942.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  340 bits (873), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 180/387 (46%), Positives = 255/387 (65%), Gaps = 4/387 (1%)

Query: 2   QRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDD-TFETENKLVGVDSRIEEI 60
           QRWR ALT+VA + G+NS     + KL EE+   +L+     +F   N LVG+DSR+E+I
Sbjct: 147 QRWRVALTKVALIDGWNSRDWPDDHKLTEEVSGAILKAWSQMSFSDINGLVGIDSRVEQI 206

Query: 61  LSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD 120
            +LL +  T +   +GIWG+GG+GKT  A A F++IS   E +YF  NVRE  E   +  
Sbjct: 207 QTLLDMEFTTNVLFVGIWGMGGIGKTTTAKALFTQISNELEAAYFVANVREESEKRTVVR 266

Query: 121 LRKELLSTLLNDGNMN-KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFA 179
           LR E+LS +L + N++    +I   F   RL RK++LIV DDV++  Q+  L G+  WF 
Sbjct: 267 LRDEILSNILEEENLHLGMRSILPRFILNRLRRKRILIVLDDVSNVEQLTTLAGDHSWFG 326

Query: 180 SGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAI 239
           SGSR++IT+RDKQ L+N   ++IY++K L + +AL+LL+   F ++HP   YIEL+   +
Sbjct: 327 SGSRVIITSRDKQVLVN-AADRIYEVKGLNYCEALQLLSFKVFKQNHPVEGYIELSKRVV 385

Query: 240 KYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFL 299
            Y +GVP+AL +L  FL+ K++E W + + KLE    +EIQ+VLKISYD L+  +K+IFL
Sbjct: 386 NYTKGVPLALNVLASFLYSKQREEWTSTLEKLEESSNLEIQKVLKISYDELEWVDKDIFL 445

Query: 300 DIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIV 359
           DIACF  G D D VT  L+ C+FF + GI  LVDKSLI I + NK+ MHDL++ MG+ IV
Sbjct: 446 DIACFFKGADVDYVTTILDGCDFFPSIGISRLVDKSLIAIID-NKLDMHDLLQEMGQHIV 504

Query: 360 RQESINDPSKRSRLWHHKEIYEVLTEN 386
           ++ES  +P K SRLW  + I+ VLT N
Sbjct: 505 QKESSENPGKNSRLWTPESIHHVLTGN 531

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	398
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.949	0.330	0.402	4.1e-71
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.954	0.293	0.371	3.4e-66
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.957	0.423	0.376	9e-61
TAIR|locus:2155347	1372	TTR1 "TOLERANT TO TOBACCO RING	0.929	0.269	0.389	2.8e-58
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.962	0.321	0.365	3e-58
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.967	0.278	0.356	3.6e-58
TAIR|locus:2122199	1607	AT4G36140 [Arabidopsis thalian	0.962	0.238	0.370	5e-58
TAIR|locus:2032602	1163	AT1G72860 [Arabidopsis thalian	0.967	0.331	0.356	1.2e-56
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.954	0.311	0.360	1.3e-56
TAIR|locus:2153368	697	AT5G45210 [Arabidopsis thalian	0.922	0.526	0.357	3.7e-55

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

 Score = 726 (260.6 bits), Expect = 4.1e-71, P = 4.1e-71
 Identities = 159/395 (40%), Positives = 248/395 (62%)

Query:     1 MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDD-TFETENKLVGVDSRIEE 59
             +QRWR AL E ANL G   +  + ++  I +IV ++  +L   +      +VG+D+ +E+
Sbjct:   138 IQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKISLSYLQNIVGIDTHLEK 197

Query:    60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI------SRRFEGSYFAHNVREAE 113
             I SLL +G+      +GIWG+GGVGKT IA A F  +      S +F+G+ F  +++E  
Sbjct:   198 IESLLEIGIN-GVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKE-N 255

Query:   114 ETGKLADLRKELLSTLLND-GNMNKFPNIGLNFQSKRLTRKKVLIVFDDV-NHPRQIEFL 171
             + G +  L+  LLS LL +  N N   + G +  + RL  KKVLIV DD+ N    +E+L
Sbjct:   256 KRG-MHSLQNALLSELLREKANYNNEED-GKHQMASRLRSKKVLIVLDDIDNKDHYLEYL 313

Query:   172 IGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASY 231
              G+LDWF +GSRI+IT RDK  +    +  IY++  L   ++++L  Q AFG++ P+ ++
Sbjct:   314 AGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVPNENF 371

Query:   232 IELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLD 291
              +L+ E + YA+G+P+ALK+ G  L   R   W++AI  ++      I + LKISYDGL+
Sbjct:   372 EKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLE 431

Query:   292 DKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLM 351
              K++ +FLDIACFL GE++D + + L +C   A  G+ +L+DKSL+ ISEYN+++MHDL+
Sbjct:   432 PKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLI 491

Query:   352 RNMGREIVRQESINDPSKRSRLWHHKEIYEVLTEN 386
             ++MG+ IV  +   DP +RSRLW  KE+ EV++ N
Sbjct:   492 QDMGKYIVNFQK--DPGERSRLWLAKEVEEVMSNN 524

GO:0005515 "protein binding" evidence=IPI

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

 Score = 683 (245.5 bits), Expect = 3.4e-66, P = 3.4e-66
 Identities = 144/388 (37%), Positives = 242/388 (62%)

Query:     3 RWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENK-LVGVDSRIEEIL 61
             +W+ AL ++A +SG +S     +SKLI++IV ++ ++L  T   ++K L+G+ S ++ + 
Sbjct:   138 KWKEALKKLAAISGEDSRNW-DDSKLIKKIVKDISDKLVSTSWDDSKGLIGMSSHMDFLQ 196

Query:    62 SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL 121
             S++ + +  D   LGIWG+GGVGKT IA   ++++S +F+   F  NV+E      +  L
Sbjct:   197 SMISI-VDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMENVKEVCNRYGVRRL 255

Query:   122 RKELLSTLLNDGNMNKFPNIGL-NFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFAS 180
             + E L  +  + +   + ++   N   +R   K V IV DDV+   Q+  L+    WF  
Sbjct:   256 QVEFLCRMFQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRSEQLNELVKETGWFGP 315

Query:   181 GSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDH--PDASYIELTHEA 238
             GSRI++T RD+  L++ G+N +Y++K L   +AL+L    AF  +   P   + EL+ +A
Sbjct:   316 GSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREEIILPHG-FEELSVQA 374

Query:   239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
             + YA G+P+AL++LG FL+R+ +  WE+ +++L+  P  +I EVL++SYDGLD++EK IF
Sbjct:   375 VNYASGLPLALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRVSYDGLDEQEKAIF 434

Query:   299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
             L I+CF   +  D V K L+ C + A  GI +L +KSLI  S    +++HDL+  MGRE+
Sbjct:   435 LYISCFYNMKQVDYVRKLLDLCGYAAEIGITILTEKSLIVESN-GCVKIHDLLEQMGREL 493

Query:   359 VRQESINDPSKRSRLWHHKEIYEVLTEN 386
             VRQ+++N+P++R  LW  ++I  +L+EN
Sbjct:   494 VRQQAVNNPAQRLLLWDPEDICHLLSEN 521

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:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 624 (224.7 bits), Expect = 9.0e-61, P = 9.0e-61
 Identities = 148/393 (37%), Positives = 229/393 (58%)

Query:     2 QRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETEN-KLVGVDSRIEEI 60
             Q+WR AL  +AN++G +S     E+ LI++I   +   L+ T   ++  LVG+D+ + E+
Sbjct:   137 QKWREALVYIANIAGESSQNWDNEADLIDKIAMSISYELNSTLSRDSYNLVGIDNHMREL 196

Query:    61 LSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL-- 118
              SLL +  T +   +GIWG  G+GKT IA A F+++S  F+ + F  NV+ +  T +L  
Sbjct:   197 DSLLCLEST-EVKMVGIWGPAGIGKTTIARALFNRLSENFQHTIFMENVKGSSRTSELDA 255

Query:   119 ----ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGN 174
                   L+++ LS +++  +M K  ++GL    +RL   KVL+V DDV+   Q++ L+  
Sbjct:   256 YGFQLRLQEQFLSEVIDHKHM-KIHDLGL--VKERLQDLKVLVVLDDVDKLEQLDALVKQ 312

Query:   175 LDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIEL 234
               WF SGSRI++T  +KQ L   G+  IY++      D+L++  Q AFG        IEL
Sbjct:   313 SQWFGSGSRIIVTTENKQLLRAHGITCIYELGFPSRSDSLQIFCQYAFGESSAPDGCIEL 372

Query:   235 THEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKE 294
               E  K A  +P+ALK+LG  L    K+  ++A+ +L      +I+ VL++ YDG+ DK+
Sbjct:   373 ATEITKLAGYLPLALKVLGSSLRGMSKDEQKSALPRLRTSLNEDIRNVLRVGYDGIHDKD 432

Query:   295 KNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNK-IRMHDLMRN 353
             K IFL IAC   GE+ D V + L +     T G++VL  +SLI IS  N+ I MH+L+  
Sbjct:   433 KVIFLHIACLFNGENVDYVKQILASSGLDVTFGLQVLTSRSLIHISRCNRTITMHNLLEQ 492

Query:   354 MGREIVRQESINDPSKRSRLWHHKEIYEVLTEN 386
             +GREIV ++SI +P KR  L    EIY+VL +N
Sbjct:   493 LGREIVCEQSIAEPGKRQFLMDASEIYDVLADN 525

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

 Score = 610 (219.8 bits), Expect = 2.8e-58, P = 2.8e-58
 Identities = 153/393 (38%), Positives = 225/393 (57%)

Query:     4 WRSALTEVANLSGFNS-HVIRPE---SKLIEEIVSEVLERLDDTFETENKLVGVDSRIEE 59
             W SAL       GF+S H  R E   S+L++E V +V E+L   F  E   +G+ S++ E
Sbjct:   101 WLSALDS----KGFSSVHHSRKECSDSQLVKETVRDVYEKL---FYMER--IGIYSKLLE 151

Query:    60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREA-EETGKL 118
             I  ++     +D   +GIWG+ G+GKT +A A F ++S  F+   F  +  +A +E G  
Sbjct:   152 IEKMINKQ-PLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVY 210

Query:   119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
               L ++ L    N G       + L     RL  K+VL+V DDV  P  +E  +G  DWF
Sbjct:   211 CLLEEQFLKE--NAGASGTVTKLSL--LRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWF 266

Query:   179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
                S I+IT++DK     C VN+IY+++ L   +AL+L + CA   D  + +  E++ + 
Sbjct:   267 GPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKV 326

Query:   239 IKYAQGVPIALKILGRFLF-RKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNI 297
             IKYA G P+AL + GR L  +KR    E A  KL+  P     + +K SYD L+D+EKNI
Sbjct:   327 IKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLKECPPAIFVDAIKSSYDTLNDREKNI 386

Query:   298 FLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGRE 357
             FLDIACF  GE+ D V + L  C FF   GI+VLV+KSL+TISE N++RMH+L++++GR+
Sbjct:   387 FLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQ 445

Query:   358 IVRQESINDPSKRSRLWHHKEIYEVLTENMVSN 390
             I+ +E+     +RSRLW    I + L E+   N
Sbjct:   446 IINRET-RQTKRRSRLWEPCSI-KYLLEDKEQN 476

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009615 "response to virus" evidence=IMP

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

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

 Score = 608 (219.1 bits), Expect = 3.0e-58, P = 3.0e-58
 Identities = 144/394 (36%), Positives = 229/394 (58%)

Query:     1 MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTF-ETENKLVGVDSRIEE 59
             ++ WR ALT+VAN+SG++    R E++ I +I  E+L+RL   +    +  VG+ SR++ 
Sbjct:   142 LKDWREALTKVANISGWDIKN-RNEAECIADITREILKRLPCQYLHVPSYAVGLRSRLQH 200

Query:    60 ILSLLGVGLTMDTCK-LGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE-AEETGK 117
             I SLL +G   D  + + I+G+GG+GKT +A   F++ S  FEGS F  N RE +++   
Sbjct:   201 ISSLLSIG--SDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREYSKKPEG 258

Query:   118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSK-RLTRKKVLIVFDDVNHPRQIEFLIGNLD 176
                L+ +LLS +L   ++ +F   GL+   K R   K+VL+V DDV+   Q+     + D
Sbjct:   259 RTHLQHQLLSDILRRNDI-EFK--GLDHAVKERFRSKRVLLVVDDVDDVHQLNSAAIDRD 315

Query:   177 WFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTH 236
              F  GSRI+IT R+   L        Y  KEL   ++L+L +  AF    P   +++ + 
Sbjct:   316 CFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKEFLQHSE 375

Query:   237 EAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKN 296
             E + Y  G+P+A+++LG FL  +    WE+ +  L+ +P   IQ  L+IS++ L  ++K+
Sbjct:   376 EVVTYCAGLPLAVEVLGAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFNALTIEQKD 435

Query:   297 IFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGR 356
             +FLDIACF +G D   V   L+ C  +    + +L+++ LITIS  N I MHDL+R+MGR
Sbjct:   436 VFLDIACFFIGVDSYYVACILDGCNLYPDIVLSLLMERCLITISG-NNIMMHDLLRDMGR 494

Query:   357 EIVRQESINDPSKRSRLWHHKEIYEVLTENMVSN 390
             +IVR+ S     +RSRLW H ++  VL +   +N
Sbjct:   495 QIVREISPKKCGERSRLWSHNDVVGVLKKKSGTN 528

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 = 609 (219.4 bits), Expect = 3.6e-58, P = 3.6e-58
 Identities = 140/393 (35%), Positives = 225/393 (57%)

Query:     1 MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENK-LVGVDSRIEE 59
             +Q WR ALT V NL+G+       +  +IE +V  VL  L +T E   + +VG++S +++
Sbjct:   139 VQEWREALTLVGNLAGYVCDKDSKDDDMIELVVKRVLAELSNTPEKVGEFIVGLESPLKD 198

Query:    60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE--AEETGK 117
             +  L+    +     LG++G+GG+GKT +A AF++KI   FE   F  ++RE  + E G 
Sbjct:   199 LTGLIDTESSSGVQVLGLYGMGGIGKTTLAKAFYNKIVGNFEQRAFISDIRERSSAENG- 257

Query:   118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDW 177
             L  L+K L+  L       +  +IGL      +  KK+++V DDV+H  Q+  L+G   W
Sbjct:   258 LVTLQKTLIKELFRLVPEIEDVSIGLEKIKANVHEKKIIVVLDDVDHIDQVHALVGETRW 317

Query:   178 FASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHE 237
             +  G+ I+IT RD + L    VN+ Y++K L    ALKL +  +  ++ P  + + L+ +
Sbjct:   318 YGQGTLIVITTRDSEILSKLSVNQQYEVKCLTEPQALKLFSYHSLRKEEPTKNLLALSKK 377

Query:   238 AIKYAQGVPIALKILGRFLFRKRKEV-WENAISKLEMVPQMEIQEVLKISYDGLDDKEKN 296
              ++ +  +P+A+++ G  L+ K++E  W+  + KL+      +Q+VL++S+  LDD+EK 
Sbjct:   378 IVQISGLLPLAVEVFGSLLYDKKEEKDWQTQLDKLKKTQPGNLQDVLELSFKSLDDEEKK 437

Query:   297 IFLDIAC-FLVGE-DRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNM 354
             +FLDIAC FL  E  +D V   L  C   A + + VL  KSL+ I   + + MHD +R+M
Sbjct:   438 VFLDIACLFLKMEIKKDEVVIVLKGCGLNAEAALSVLRQKSLVKILANDTLWMHDQIRDM 497

Query:   355 GREIVRQESINDPSKRSRLWHHKEIYEVLTENM 387
             GR++V +ES  DP  RSRLW   EI  VL  NM
Sbjct:   498 GRQMVLKESREDPGLRSRLWDRGEIMTVLN-NM 529

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:2122199 AT4G36140 [Arabidopsis thaliana (taxid:3702)]

 Score = 609 (219.4 bits), Expect = 5.0e-58, P = 5.0e-58
 Identities = 146/394 (37%), Positives = 222/394 (56%)

Query:     1 MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEI 60
             ++ W SAL E+  L G ++     ES+L+EEIV +V E+L   F TE   +G++SR+ E+
Sbjct:   537 IREWSSALQELRELPGHHNREECSESELVEEIVKDVHEKL---FPTEQ--IGINSRLLEM 591

Query:    61 LSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD 120
               LL         ++GIWG+ G+GKT +A AFF +IS  +E S F  +  +A     L  
Sbjct:   592 EHLL-CKQPWGVRRIGIWGMPGIGKTTLAKAFFDQISGGYEASCFIKHFDKAFSGKGLHR 650

Query:   121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFAS 180
             L +E    +L +           +    +L++K+ L+V DDV++P   E  +    WF  
Sbjct:   651 LLEEHFGKILKELPRVCSSITRPSLPRDKLSKKRTLVVLDDVHNPLVAESFLEGFHWFGP 710

Query:   181 GSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIK 240
             GS I+IT+RDKQ    C +N +Y+++     +AL+L +QCAF RD  + + +EL+ + I 
Sbjct:   711 GSLIIITSRDKQVFRLCQINHVYEVQSFNENEALQLFSQCAFRRDINEQNLLELSLKVID 770

Query:   241 YAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLD 300
             YA G P+AL    R L  K     E    KL+     +I ++ K SY+ LDD EKNIFLD
Sbjct:   771 YASGNPLALSFYCRVLKGKELSEMETTFFKLKQRTPYKIFDLFKSSYETLDDNEKNIFLD 830

Query:   301 IACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVR 360
             IACF  GE+ D V + L  C FF   GI+VLV+  L+TISE N+++MH ++++ GREI+ 
Sbjct:   831 IACFFSGENVDYVMRLLEGCGFFPHVGIDVLVENCLVTISE-NRVKMHRIIQDFGREIID 889

Query:   361 QESINDPSKR--SRLWHHKEIYEVLTENMVSNYD 392
              E++    +R  S  W  K + E   + + +N D
Sbjct:   890 GETVQIERRRRLSDPWSIKFLLE--DDELEANED 921

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:2032602 AT1G72860 [Arabidopsis thaliana (taxid:3702)]

 Score = 593 (213.8 bits), Expect = 1.2e-56, P = 1.2e-56
 Identities = 140/393 (35%), Positives = 215/393 (54%)

Query:     4 WRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETE-NKLVGVDSRIEEILS 62
             WR ALT++A+L+G +      E+ +IEEIV ++ ++L      + + +VG+++ +E +  
Sbjct:   137 WREALTQIASLAGKDFETCEDEASMIEEIVKDISKKLLIMQPVDFSDIVGMNAHMERLSP 196

Query:    63 LLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR 122
             LL +    +   +GIWG+GG+GKT IA   F + S+ F    F  NV +    G ++ L 
Sbjct:   197 LLSMDSENEVRMIGIWGMGGIGKTTIAKCLFDQFSQGFPARCFLENVSKIYRKGGVSSLA 256

Query:   123 KELLSTLLNDGNMN-KFPNIGLNFQS--KRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFA 179
             ++ LST L       K   + L  Q    R   +KV +V D+V+  RQ+        WF 
Sbjct:   257 EKFLSTTLGLSKKKMKGSGVKLGPQEIKARFGCRKVFVVLDNVDDMRQMHAFAQESSWFG 316

Query:   180 SGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAF-GRDHPDASYIELTHEA 238
              GSRI+IT RDK  L   GV  +Y++K + +  AL+L NQ AF G   P   Y +L+  A
Sbjct:   317 PGSRIIITTRDKGLLNTYGVRTVYEVKCMDNDAALQLFNQLAFKGALPPSELYEKLSIRA 376

Query:   239 IKYAQGVPIALKILGRFLFRKRKEV--WENAISKLEMVPQMEIQEVLKISYDGLDDKEKN 296
                AQG+P+A++  G F FR+   +  W++A+ +    P   + E+LKISYDGL++ +KN
Sbjct:   377 SWLAQGLPVAIEAYGLF-FRRMTSLKEWDDALCRFIEAPDESVMEILKISYDGLEETDKN 435

Query:   297 IFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGR 356
             +FL +AC   GE     T  L+        G+++L +KSLI I+    I+MH+L+    R
Sbjct:   436 VFLHVACLFNGEPLRRATTLLDDGVLQGCLGLKILAEKSLIEITASGYIKMHNLVDQTAR 495

Query:   357 EIVRQESINDPSKRSRLWHHKEIYEVLTENMVS 389
              IV QES+     R  LW+  EIYE+L  N  S
Sbjct:   496 AIVNQESMQRRHGRGVLWNPYEIYELLKRNTTS 528

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:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 593 (213.8 bits), Expect = 1.3e-56, P = 1.3e-56
 Identities = 145/402 (36%), Positives = 233/402 (57%)

Query:     4 WRSALTEVANLSGFN-SHVIRPESKLIEEIVSEVLERLDDTFETENK-LVGVDSRIEEIL 61
             W++AL   +N+ G+    +   E+KL++EI  +  ++L+D   + N+ LVG++SR++ + 
Sbjct:   139 WKAALASASNILGYVVKEISTSEAKLVDEIAVDTFKKLNDLAPSGNEGLVGIESRLKNLE 198

Query:    62 SLLGVGLTMDTCKL-GIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD 120
              LL     +DT  + GI G+ G+GKT +A   + ++  +F+GS F  N+RE      L  
Sbjct:   199 KLLSWE-DLDTVHIIGIVGMVGIGKTTLADCLYGRMRGQFDGSCFLTNIRENSGRSGLES 257

Query:   121 LRKELLSTLLNDGNMN-KFP-NIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF 178
             L ++L ST+LND ++    P N    F+ +RL  K++LIV DDVN  +QI +L+G+  W+
Sbjct:   258 LLQKLFSTVLNDRDLEIGAPGNAHERFE-RRLKSKRLLIVLDDVNDEKQIRYLMGHCKWY 316

Query:   179 ASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA 238
               GSRI+IT RD + LI     + Y + +L   +ALKL +  AF    P   +  LT+  
Sbjct:   317 QGGSRIIITTRDSK-LIETIKGRKYVLPKLNDREALKLFSLNAFSNSFPLKEFEGLTNMV 375

Query:   239 IKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIF 298
             + YA+G P+ALK+LG  L  +    WE  + +L+     +I EVL+ SY+ L  ++KN+F
Sbjct:   376 LDYAKGHPLALKVLGSDLCERDDLYWEAKLDRLKSRSHGDIYEVLETSYEELTTEQKNVF 435

Query:   299 LDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREI 358
             LDIACF   E+ D VT  LN+     +  ++ LVDK LIT+S+ N+I MHD+++ M +EI
Sbjct:   436 LDIACFFRSENVDYVTSLLNSHGVDVSGVVKDLVDKCLITLSD-NRIEMHDMLQTMAKEI 494

Query:   359 -VRQESI------------NDPSKRSRLWHHKEIYEVLTENM 387
              ++ E+I            N      RLW  ++I ++LTE +
Sbjct:   495 SLKVETIGIRDCRWLSRHGNQCQWHIRLWDSEDICDLLTEGL 536

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2153368 AT5G45210 [Arabidopsis thaliana (taxid:3702)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 138/386 (35%), Positives = 218/386 (56%)

Query:     3 RWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILS 62
             +WR  L + A+L G   ++ + +S+ +E+IV++V E LD T +     +G+ SR+ EI  
Sbjct:   128 KWRDCLIQTASLPGHELNLQQEDSEFVEKIVADVREVLDATGK-----IGIYSRLLEIEK 182

Query:    63 LLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR 122
             LL    ++    LG+WG+ G+GKT IA A F ++S+ F+ S+F  +  +    G+   LR
Sbjct:   183 LL-CKQSLKFYYLGLWGMPGIGKTTIAEAAFKQMSKDFDASFFVEDFHKEYHKGRPYKLR 241

Query:   123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGS 182
             +E L  +   G++ + P   L+F  K L  KKVL V DDV +    E  +G ++  + GS
Sbjct:   242 EEHLKKVPKGGSI-RGPI--LSF--KELREKKVLFVLDDVRNLMDFESFLGGIEGVSPGS 296

Query:   183 RILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHP-DASYIELTHEAIKY 241
              I++T+RDKQ L  C V  ++++  L   +A++L  + AF ++ P DA  ++++ +  +Y
Sbjct:   297 VIILTSRDKQVLHQCQVEDVFEVPSLNEEEAVRLFARTAFHKEGPSDAKLMDVSKKVARY 356

Query:   242 AQGVPIALKILGRFLFRKRK-EVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLD 300
             A G P AL   GR L +K+K E  E    K+   P  EI  + + SYD L+D E++IFLD
Sbjct:   357 AGGNPKALCFYGRELEKKKKPEEMEEEFEKMRQCPPQEILSLFRSSYDALNDNERSIFLD 416

Query:   301 IACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVR 360
             IACF  GE  D V + L  C FF   GI+ L ++SL+TIS+  ++ M   +++  RE   
Sbjct:   417 IACFFNGEPCDDVMRILEGCGFFPHVGIDRLAERSLLTISKEKRVEMQGFIQDAAREF-- 474

Query:   361 QESINDPSKRSRLWHHKEIYEVLTEN 386
                IN  S+R R W    I  +L EN
Sbjct:   475 ---INQTSRRRRHWEPSRI-RLLLEN 496

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	398
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-64
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-24

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

 Score =  222 bits (566), Expect = 3e-64
 Identities = 139/401 (34%), Positives = 226/401 (56%), Gaps = 27/401 (6%)

Query: 3   RWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDT----FETENKLVGVDSRIE 58
           +W+ ALT+VAN+ G++S     E+K+IEEI ++VL +L+ T    FE     VG++  I 
Sbjct: 138 QWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFE---DFVGIEDHIA 194

Query: 59  EILSLLGVGLTMDTCKL-GIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV-----REA 112
           ++ SLL   L  +  ++ GIWG  G+GKT IA A FS++SR+F+ S F          E 
Sbjct: 195 KMSSLLH--LESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEI 252

Query: 113 EETGKLAD------LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR 166
             +    D      L++  LS +L+  ++ K  ++G     +RL  +KVLI  DD++   
Sbjct: 253 YSSANPDDYNMKLHLQRAFLSEILDKKDI-KIYHLGA--MEERLKHRKVLIFIDDLDDQD 309

Query: 167 QIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDH 226
            ++ L G   WF SGSRI++  +DK  L   G++ IY++    +  AL++  + AF ++ 
Sbjct: 310 VLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS 369

Query: 227 PDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKIS 286
           P   ++EL  E    A  +P+ L +LG +L  + KE W + + +L      +I++ L++S
Sbjct: 370 PPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVS 429

Query: 287 YDGLDD-KEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKI 345
           YDGL++ K+K IF  IAC   GE  + +   L   +     G++ LVDKSLI +   + +
Sbjct: 430 YDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIV 488

Query: 346 RMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTEN 386
            MH L++ MG+EIVR +S N+P +R  L   K+I +VL +N
Sbjct: 489 EMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDN 528

syringae 6; Provisional. Length = 1153

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

 Score =  100 bits (252), Expect = 3e-24
 Identities = 66/279 (23%), Positives = 125/279 (44%), Gaps = 18/279 (6%)

Query: 56  RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK--ISRRFEGSYFAHNVREAE 113
            + E L  +   L +    +GI G+GGVGKT +A   ++   +   F+   +    +   
Sbjct: 7   ALIEKLLEMSDNLGV----VGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYT 62

Query: 114 ETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIG 173
           E     D+ +EL     +    N+  +       + L RK+ L+V DDV      + +  
Sbjct: 63  EFRLQKDILQELGLDDSDWVEKNE--SELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 174 NLDWFASGSRILITARDKQALINCGV-NKIYQIKELVHVDALKLLNQCAFGRDHPDASYI 232
                 +GSR+++T R +      G  +K ++++ L   ++ +L +   F ++ P    +
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 233 E-LTHEAIKYAQGVPIALKILGRFL-FRKRKEVWENAISKL-----EMVPQMEIQEVLKI 285
           E +  E ++  +G+P+ALK+LG  L F+   + WE+ + +L           E+  +L +
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSL 240

Query: 286 SYDGLDDKEKNIFLDIACFLVGED--RDIVTKYLNACEF 322
           SYD L    K  FL +A F    +  ++ + K   A  F
Sbjct: 241 SYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGF 279

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	398
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.85
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.82
COG3899	849	Predicted ATPase [General function prediction only	99.73
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.64
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.6
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.58
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.57
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.54
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.46
PF05729	166	NACHT: NACHT domain	99.33
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.3
PF14516	331	AAA_35: AAA-like domain	99.26
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.23
PRK12402	337	replication factor C small subunit 2; Reviewed	99.21
PRK13342	413	recombination factor protein RarA; Reviewed	99.19
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.18
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.17
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.16
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.15
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.15
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.14
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.12
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.1
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.1
PRK06893	229	DNA replication initiation factor; Validated	99.1
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.1
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.08
PLN03025	319	replication factor C subunit; Provisional	99.08
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.07
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.06
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.05
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.05
PRK04195	482	replication factor C large subunit; Provisional	99.04
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.04
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.03
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	99.03
PRK08727	233	hypothetical protein; Validated	99.03
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.02
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.02
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.01
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.0
PRK08084	235	DNA replication initiation factor; Provisional	98.99
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.99
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.99
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.98
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.97
PTZ00202	550	tuzin; Provisional	98.97
PF13173	128	AAA_14: AAA domain	98.97
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.95
KOG2028	554	consensus ATPase related to the helicase subunit o	98.94
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.94
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.93
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.93
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.93
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.93
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.92
PRK13341	725	recombination factor protein RarA/unknown domain f	98.92
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.92
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.92
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.91
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.91
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.91
PRK05642	234	DNA replication initiation factor; Validated	98.9
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.89
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.88
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.88
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.86
PRK09087	226	hypothetical protein; Validated	98.86
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.85
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.83
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.83
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.8
COG3903	414	Predicted ATPase [General function prediction only	98.8
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.8
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.8
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.79
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.78
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.78
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.77
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.77
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.75
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.75
CHL00095	821	clpC Clp protease ATP binding subunit	98.72
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.72
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.72
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.71
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.69
PRK06620	214	hypothetical protein; Validated	98.67
PRK10865	857	protein disaggregation chaperone; Provisional	98.66
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.65
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.65
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.65
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.64
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.64
PHA02544	316	44 clamp loader, small subunit; Provisional	98.63
PRK12422	445	chromosomal replication initiation protein; Provis	98.63
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.6
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.57
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.54
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.53
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.52
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.51
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.49
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.48
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.46
PF00004	132	AAA: ATPase family associated with various cellula	98.44
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.38
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.38
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.37
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.37
CHL00181	287	cbbX CbbX; Provisional	98.37
CHL00176	638	ftsH cell division protein; Validated	98.34
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.31
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.3
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.27
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.26
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.26
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.25
CHL00195	489	ycf46 Ycf46; Provisional	98.23
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.21
PRK13531	498	regulatory ATPase RavA; Provisional	98.2
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.2
PRK10536	262	hypothetical protein; Provisional	98.19
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.18
cd01128	249	rho_factor Transcription termination factor rho is	98.18
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.18
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.18
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.18
smart00382	148	AAA ATPases associated with a variety of cellular	98.17
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.17
PRK08116	268	hypothetical protein; Validated	98.16
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.15
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.13
PRK08181	269	transposase; Validated	98.13
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.11
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.11
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.1
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.08
PRK10865	857	protein disaggregation chaperone; Provisional	98.08
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.08
PRK09376	416	rho transcription termination factor Rho; Provisio	98.06
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.05
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.05
PRK12377	248	putative replication protein; Provisional	98.04
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.04
TIGR00767	415	rho transcription termination factor Rho. Members	98.03
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	98.03
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.03
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.02
PRK07952	244	DNA replication protein DnaC; Validated	98.01
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.99
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.98
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.97
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.97
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.96
PRK04132	846	replication factor C small subunit; Provisional	97.96
PRK09183	259	transposase/IS protein; Provisional	97.94
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.94
CHL00095	821	clpC Clp protease ATP binding subunit	97.93
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.92
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.92
PRK08939	306	primosomal protein DnaI; Reviewed	97.92
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.91
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.89
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.88
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.87
PRK06526	254	transposase; Provisional	97.86
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.85
PRK04296	190	thymidine kinase; Provisional	97.82
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.82
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.82
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.82
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.81
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.81
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.81
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.8
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.8
PRK06921	266	hypothetical protein; Provisional	97.79
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.79
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.79
PRK06835	329	DNA replication protein DnaC; Validated	97.78
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.78
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.76
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.75
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.74
PRK12608	380	transcription termination factor Rho; Provisional	97.74
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.74
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.73
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.73
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.72
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.72
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.72
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.71
PRK09354	349	recA recombinase A; Provisional	97.71
PRK06067	234	flagellar accessory protein FlaH; Validated	97.7
PHA00729	226	NTP-binding motif containing protein	97.69
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.66
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.65
PTZ00494	664	tuzin-like protein; Provisional	97.65
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.65
PRK06696	223	uridine kinase; Validated	97.65
PHA02244	383	ATPase-like protein	97.65
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.61
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.6
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.6
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.6
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.59
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.58
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.58
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.57
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.56
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.56
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.54
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.53
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.51
PRK14974	336	cell division protein FtsY; Provisional	97.49
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.49
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.49
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.49
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.49
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.48
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.48
PRK05541	176	adenylylsulfate kinase; Provisional	97.47
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.46
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.45
PRK07261	171	topology modulation protein; Provisional	97.45
PRK08118	167	topology modulation protein; Reviewed	97.45
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.42
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.41
PRK07667	193	uridine kinase; Provisional	97.4
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.4
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.39
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.37
PRK11823	446	DNA repair protein RadA; Provisional	97.37
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	97.37
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.37
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.36
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	97.36
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.31
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.31
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.3
PRK05973	237	replicative DNA helicase; Provisional	97.29
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.29
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.28
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.26
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.26
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.24
CHL00206	2281	ycf2 Ycf2; Provisional	97.23
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.2
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.19
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	97.18
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.18
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.17
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	97.17
PRK15424	538	propionate catabolism operon regulatory protein Pr	97.17
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.17
PRK15455	644	PrkA family serine protein kinase; Provisional	97.17
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.16
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.16
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.16
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.16
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.16
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.15
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.15
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.14
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.14
PTZ00035	337	Rad51 protein; Provisional	97.14
PRK05439	311	pantothenate kinase; Provisional	97.13
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.13
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.13
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.13
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.12
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.12
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.12
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.12
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.12
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.11
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.11
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	97.1
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.1
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.09
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.09
PF13245	76	AAA_19: Part of AAA domain	97.08
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.08
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.07
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.07
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.06
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.06
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.06
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.06
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.05
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.04
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.04
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.04
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.03
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	97.03
PRK04328	249	hypothetical protein; Provisional	97.02
PRK06762	166	hypothetical protein; Provisional	97.01
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.0
PF07726	131	AAA_3: ATPase family associated with various cellu	97.0
PRK06547	172	hypothetical protein; Provisional	96.98
PTZ00301	210	uridine kinase; Provisional	96.98
PRK08233	182	hypothetical protein; Provisional	96.98
PRK04040	188	adenylate kinase; Provisional	96.98
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.98
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.97
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.96
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.95
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.95
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.94
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.93
COG4240	300	Predicted kinase [General function prediction only	96.92
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.91
PRK14531	183	adenylate kinase; Provisional	96.91
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.91
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.9
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.9
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.9
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.89
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.89
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.89
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.89
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.89
PRK05480	209	uridine/cytidine kinase; Provisional	96.89
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.88
PRK06217	183	hypothetical protein; Validated	96.86
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.85
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.85
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.85
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	96.85
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.84
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.84
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.84
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.83
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.83
PRK15115	444	response regulator GlrR; Provisional	96.83
PRK00131	175	aroK shikimate kinase; Reviewed	96.83
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.82
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.82
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.81
PRK00279	215	adk adenylate kinase; Reviewed	96.81
cd03246	173	ABCC_Protease_Secretion This family represents the	96.81
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.8
PRK14528	186	adenylate kinase; Provisional	96.79
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.79
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.79
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.79
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.79
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.78
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.78
PRK00889	175	adenylylsulfate kinase; Provisional	96.78
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.78
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.78
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.77
PRK03839	180	putative kinase; Provisional	96.77
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	96.77
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.77
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.77
PRK10867	433	signal recognition particle protein; Provisional	96.76
COG0714	329	MoxR-like ATPases [General function prediction onl	96.76
PRK13765	637	ATP-dependent protease Lon; Provisional	96.76
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.76
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.75
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.75
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.73
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.73
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.72
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	96.71
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.7
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.7
PRK10436	462	hypothetical protein; Provisional	96.7
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.68
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.68
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.68
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.67
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.67
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.67
PRK03846	198	adenylylsulfate kinase; Provisional	96.67
PLN02674	244	adenylate kinase	96.67
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.65
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.65
PRK14737	186	gmk guanylate kinase; Provisional	96.65
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.65
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.65
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	96.64
TIGR00959	428	ffh signal recognition particle protein. This mode	96.64
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.64
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.64
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.63
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.61
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.6
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.6
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.59
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.59
PRK14738	206	gmk guanylate kinase; Provisional	96.59
PRK05818	261	DNA polymerase III subunit delta'; Validated	96.59
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.58
PRK07276	290	DNA polymerase III subunit delta'; Validated	96.58
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	96.58
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	96.58
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.57
COG2204	464	AtoC Response regulator containing CheY-like recei	96.57
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.57
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.56
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.55
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.54
PRK00625	173	shikimate kinase; Provisional	96.54
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.53
PRK14527	191	adenylate kinase; Provisional	96.53
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.53
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.52
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.52
COG3910	233	Predicted ATPase [General function prediction only	96.52
PRK15453	290	phosphoribulokinase; Provisional	96.52
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.51
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.51
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.51
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.51
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.5
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.5
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	96.49
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.49
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.49
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.48
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.48
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.47
PRK14529	223	adenylate kinase; Provisional	96.47
PRK00300	205	gmk guanylate kinase; Provisional	96.46
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	96.46
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.45
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.45
COG4181	228	Predicted ABC-type transport system involved in ly	96.45
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.45
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.45
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.44
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.43
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.43
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.43
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.42
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.42
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.41
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.41
PRK13808	333	adenylate kinase; Provisional	96.41
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.41
PRK14530	215	adenylate kinase; Provisional	96.4
COG1072	283	CoaA Panthothenate kinase [Coenzyme metabolism]	96.4
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.4
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.4
PRK13947	171	shikimate kinase; Provisional	96.39
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.39
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.39
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	96.39
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.38
PRK13764	602	ATPase; Provisional	96.38
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.38
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.38
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.37
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.37
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.36
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	96.36
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.35
PRK13949	169	shikimate kinase; Provisional	96.34
PRK09302	509	circadian clock protein KaiC; Reviewed	96.34
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.34
PRK10416	318	signal recognition particle-docking protein FtsY;	96.34
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.34
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.34
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	96.33
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.33
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.31
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.31
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.31
PLN02200	234	adenylate kinase family protein	96.3
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.27
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.26
PRK13889	988	conjugal transfer relaxase TraA; Provisional	96.26
PRK06761	282	hypothetical protein; Provisional	96.25
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	96.25
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.24
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.24
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.24
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.24
PRK13768	253	GTPase; Provisional	96.23
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.23
PLN02459	261	probable adenylate kinase	96.23
PRK14526	211	adenylate kinase; Provisional	96.23
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	96.23
PRK10646	153	ADP-binding protein; Provisional	96.23
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.22
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.21
TIGR00665	434	DnaB replicative DNA helicase. This model describe	96.21
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.21
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.21
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.2
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.2
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	96.19

>PLN03210 Resistant to P

Probab=100.00  E-value=1.6e-45  Score=392.82  Aligned_cols=384  Identities=35%  Similarity=0.610  Sum_probs=324.2

Q ss_pred             CchHHHHHHHHhccCCccccCCCcchHHHHHHHHHHHHhccccc-cccCcccccchhHHHHHHHhccCCCCCceEEEEEc
Q 015918            1 MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTF-ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWG   79 (398)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~-~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G   79 (398)
                      +++||+|+.+|+++.|+++..-..|+++|++|+.++.+.+...+ .+.+.+|||+..++++..++.... ...++++|+|
T Consensus       136 ~~~w~~al~~~~~~~g~~~~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~-~~~~vvgI~G  214 (1153)
T PLN03210        136 KIQWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLES-EEVRMVGIWG  214 (1153)
T ss_pred             HHHHHHHHHHHhCcCceecCCCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHcccc-CceEEEEEEc
Confidence            47999999999999999998756699999999999999998777 677899999999999999997655 6789999999


Q ss_pred             CCCccHHHHHHHHHHHhhccCcceEEEeec--hhh---hhc------CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHH
Q 015918           80 IGGVGKTAIAGAFFSKISRRFEGSYFAHNV--REA---EET------GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK  148 (398)
Q Consensus        80 ~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~--~~~---~~~------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~  148 (398)
                      |+|+||||||+.+++.+..+|+..+|+...  ...   ...      .....+...++..+......   .......+..
T Consensus       215 ~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~---~~~~~~~~~~  291 (1153)
T PLN03210        215 SSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI---KIYHLGAMEE  291 (1153)
T ss_pred             CCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc---ccCCHHHHHH
Confidence            999999999999999999999888887521  000   000      01123334444444333211   1112356777


Q ss_pred             hhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCC
Q 015918          149 RLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPD  228 (398)
Q Consensus       149 ~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~  228 (398)
                      .+.++++||||||+|+..+++.+.....+..+|++||||||+..+.........++++.++.+++++||.++++....++
T Consensus       292 ~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~  371 (1153)
T PLN03210        292 RLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPP  371 (1153)
T ss_pred             HHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCc
Confidence            88999999999999999999988776666678999999999998887665667899999999999999999998776666


Q ss_pred             cchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHHHhccCChhhHHHHHHHhHhcCch-HHHHHHHHhhcCcCC
Q 015918          229 ASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDD-KEKNIFLDIACFLVG  307 (398)
Q Consensus       229 ~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~-~~~~~l~~la~~~~~  307 (398)
                      ....+++.++++.|+|+||||+.+|..++..+..+|...++++...++..+..+++.+|+.|++ .+|.+|+++|||+.+
T Consensus       372 ~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~  451 (1153)
T PLN03210        372 DGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNG  451 (1153)
T ss_pred             HHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCC
Confidence            6678899999999999999999999999998899999999999988888999999999999976 589999999999998


Q ss_pred             cChHHHHHHHHhcCccccccHHHHhhccCeeeccCCceEecHHHHHHHHHHHhhcCCCCCCCcccccCchhHHHHHHhCc
Q 015918          308 EDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEIYEVLTENM  387 (398)
Q Consensus       308 ~~~~~l~~~~~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~H~lir~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  387 (398)
                      .+.+....++...+......++.|++++|++.. .+++.||+++|++++++++++. ..+..|.++|.+.+|+.+|+...
T Consensus       452 ~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~  529 (1153)
T PLN03210        452 EKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT  529 (1153)
T ss_pred             CCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCc
Confidence            888888888877777777889999999999986 6789999999999999998876 67889999999999999999887


Q ss_pred             Ccc
Q 015918          388 VSN  390 (398)
Q Consensus       388 ~~~  390 (398)
                      ++.
T Consensus       530 g~~  532 (1153)
T PLN03210        530 GTK  532 (1153)
T ss_pred             ccc
Confidence            754

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.3e-37  Score=317.36  Aligned_cols=303  Identities=25%  Similarity=0.347  Sum_probs=263.8

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH---hhccCcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK---ISRRFEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      ||.+.-++.+.+.|....   ..+++|+|+||+||||||+++.++   +..+|+.++|++    ++...+...+..+++.
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 VGLETMLEKLWNRLMEDD---VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFTTRKIQQTILE  233 (889)
T ss_pred             ccHHHHHHHHHHHhccCC---CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----EcccccHHhHHHHHHH
Confidence            999999999999998744   389999999999999999999987   568899999999    7888999999999999


Q ss_pred             HHhcCCCCCCCC--ccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHh-cCCCeeEE
Q 015918          128 TLLNDGNMNKFP--NIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALIN-CGVNKIYQ  204 (398)
Q Consensus       128 ~l~~~~~~~~~~--~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~-~~~~~~~~  204 (398)
                      .++.........  +.....+.+.|..++++||+||+|+..+|+.+...++...++++|++|||+..++.. +.....++
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            887754432222  347778888999999999999999999999999888887888999999999999988 55678899


Q ss_pred             cCCCChhhhHHHHHHhhcCCC-CCCcchHHHHHHHHHHcCCChHHHHHHHHHhccC-CHHHHHHHHHHhccC-----C--
Q 015918          205 IKELVHVDALKLLNQCAFGRD-HPDASYIELTHEAIKYAQGVPIALKILGRFLFRK-RKEVWENAISKLEMV-----P--  275 (398)
Q Consensus       205 l~~L~~~e~~~Ll~~~~~~~~-~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~-~~~~~~~~~~~l~~~-----~--  275 (398)
                      ++.|+.+|||+||.+.++... ...+...++++++++.|+|+|+|++.+|..+..+ +..+|+.+.+.+...     +  
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            999999999999999986653 2223478999999999999999999999999984 466899999887554     1  


Q ss_pred             hhhHHHHHHHhHhcCchHHHHHHHHhhcCcCC--cChHHHHHHHHhcCc------------cccccHHHHhhccCeeecc
Q 015918          276 QMEIQEVLKISYDGLDDKEKNIFLDIACFLVG--EDRDIVTKYLNACEF------------FATSGIEVLVDKSLITISE  341 (398)
Q Consensus       276 ~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~--~~~~~l~~~~~~~~~------------~~~~~l~~L~~~~Ll~~~~  341 (398)
                      ...+..++..+|+.|+++.+.||+++|+||.+  ++.+.+..+|.+++.            ....++++|++++|+...+
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            46789999999999999999999999999999  999999999999883            2346799999999999764


Q ss_pred             C----CceEecHHHHHHHHHHHh
Q 015918          342 Y----NKIRMHDLMRNMGREIVR  360 (398)
Q Consensus       342 ~----~~~~~H~lir~~~~~~~~  360 (398)
                      .    ..+.|||++|++|..++.
T Consensus       474 ~~~~~~~~kmHDvvRe~al~ias  496 (889)
T KOG4658|consen  474 DEGRKETVKMHDVVREMALWIAS  496 (889)
T ss_pred             cccceeEEEeeHHHHHHHHHHhc
Confidence            2    469999999999999998

>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=1.2e-35  Score=273.18  Aligned_cols=266  Identities=27%  Similarity=0.406  Sum_probs=205.8

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH--hhccCcceEEEeechhhhhcCCHHHHHHHHHHHHh
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK--ISRRFEGSYFAHNVREAEETGKLADLRKELLSTLL  130 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~  130 (398)
                      |+.++++|.+.|.... ++.++|+|+|++|+||||||.+++++  ...+|+.++|+.    .+...+...+...++..+.
T Consensus         1 re~~~~~l~~~L~~~~-~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~----~~~~~~~~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS-NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVS----LSKNPSLEQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTT-TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEE----EES-SCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCC-CCeEEEEEEcCCcCCcceeeeecccccccccccccccccc----ccccccccccccccccccc
Confidence            7899999999999866 78999999999999999999999988  889999999998    5555666888889998887


Q ss_pred             cCCCC---CCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHhcCC-CeeEEcC
Q 015918          131 NDGNM---NKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGV-NKIYQIK  206 (398)
Q Consensus       131 ~~~~~---~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~~~-~~~~~l~  206 (398)
                      .....   +...+.....+...+.++++||||||+++...++.+...++....+++||+|||+..+...... ...++++
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            76432   1222237788888899999999999999999887777666655678999999999877655443 6789999


Q ss_pred             CCChhhhHHHHHHhhcCCC-CCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc-CCHHHHHHHHHHhccCC------hhh
Q 015918          207 ELVHVDALKLLNQCAFGRD-HPDASYIELTHEAIKYAQGVPIALKILGRFLFR-KRKEVWENAISKLEMVP------QME  278 (398)
Q Consensus       207 ~L~~~e~~~Ll~~~~~~~~-~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~~~------~~~  278 (398)
                      +|+.+++.+||.+.++... .......+.+.++++.|+|+|++|+.+|.+++. .....|....+.+....      ..+
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            9999999999999885443 222334567899999999999999999999954 24567777776654332      477


Q ss_pred             HHHHHHHhHhcCchHHHHHHHHhhcCcCC--cChHHHHHHHHhcCcc
Q 015918          279 IQEVLKISYDGLDDKEKNIFLDIACFLVG--EDRDIVTKYLNACEFF  323 (398)
Q Consensus       279 v~~~l~~~~~~L~~~~~~~l~~la~~~~~--~~~~~l~~~~~~~~~~  323 (398)
                      +..++..+|+.|+++.|.+|.++|+||.+  ++.+.+..+|.+++..
T Consensus       236 ~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i  282 (287)
T PF00931_consen  236 VFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFI  282 (287)
T ss_dssp             HHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHT
T ss_pred             ccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCC
Confidence            99999999999999999999999999987  7899999999886543

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.85  E-value=1.4e-19  Score=192.00  Aligned_cols=297  Identities=12%  Similarity=0.107  Sum_probs=193.5

Q ss_pred             ccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhh-hcCCHHHHH
Q 015918           44 FETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAE-ETGKLADLR  122 (398)
Q Consensus        44 ~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~  122 (398)
                      |+.+..+|-|...++.+.+.      ...++++|+||+|.||||++.++++...    .+.|++    ++ .+.++..+.
T Consensus        10 p~~~~~~~~R~rl~~~l~~~------~~~~~~~v~apaG~GKTtl~~~~~~~~~----~~~w~~----l~~~d~~~~~f~   75 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLSGA------NNYRLVLVTSPAGYGKTTLISQWAAGKN----NLGWYS----LDESDNQPERFA   75 (903)
T ss_pred             CCCccccCcchHHHHHHhcc------cCCCeEEEECCCCCCHHHHHHHHHHhCC----CeEEEe----cCcccCCHHHHH
Confidence            35667899998877777532      4568999999999999999999986432    588987    43 234555555


Q ss_pred             HHHHHHHhcCCCC--CCC---------Ccc--chHHHHHhh-C-CceEEEEEeCCCCh--Hh-HHHHHccCCCCCCCcEE
Q 015918          123 KELLSTLLNDGNM--NKF---------PNI--GLNFQSKRL-T-RKKVLIVFDDVNHP--RQ-IEFLIGNLDWFASGSRI  184 (398)
Q Consensus       123 ~~i~~~l~~~~~~--~~~---------~~~--~~~~l~~~l-~-~~~~LlvlDd~~~~--~~-~~~l~~~l~~~~~~~~i  184 (398)
                      ..++..+......  +..         ...  ....+...+ . +.+++|||||++..  .. .+.+...+....++.++
T Consensus        76 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~l  155 (903)
T PRK04841         76 SYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTL  155 (903)
T ss_pred             HHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEE
Confidence            6666555322111  000         110  122222222 2 67999999999642  22 22333333333567889


Q ss_pred             EEEeCChhHHHh---cCCCeeEEcC----CCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhc
Q 015918          185 LITARDKQALIN---CGVNKIYQIK----ELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLF  257 (398)
Q Consensus       185 liTsR~~~~~~~---~~~~~~~~l~----~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~  257 (398)
                      |+|||.......   ........|.    +|+.+|+.+|+.... +...    ..+.+..+++.|+|+|+++.+++..+.
T Consensus       156 v~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~-~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~  230 (903)
T PRK04841        156 VVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL-SSPI----EAAESSRLCDDVEGWATALQLIALSAR  230 (903)
T ss_pred             EEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc-CCCC----CHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            999998532211   1122334455    999999999998765 2222    235588999999999999999988775


Q ss_pred             cCCHHHHHHHHHHhccCChhhHHHHH-HHhHhcCchHHHHHHHHhhcCcCCcChHHHHHHHHhcCccccccHHHHhhccC
Q 015918          258 RKRKEVWENAISKLEMVPQMEIQEVL-KISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSL  336 (398)
Q Consensus       258 ~~~~~~~~~~~~~l~~~~~~~v~~~l-~~~~~~L~~~~~~~l~~la~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~L  336 (398)
                      ..+. ........+...+...+...+ ...+..|+++.++++..+|+++ .++.+.+..+.+.  .+....++.|.+.+|
T Consensus       231 ~~~~-~~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~~--~~~~~~L~~l~~~~l  306 (903)
T PRK04841        231 QNNS-SLHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTGE--ENGQMRLEELERQGL  306 (903)
T ss_pred             hCCC-chhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcCC--CcHHHHHHHHHHCCC
Confidence            4321 111111222222233455544 4458999999999999999985 7887777777643  345678999999999


Q ss_pred             eeec-c--CCceEecHHHHHHHHHHHhhcC
Q 015918          337 ITIS-E--YNKIRMHDLMRNMGREIVRQES  363 (398)
Q Consensus       337 l~~~-~--~~~~~~H~lir~~~~~~~~~~~  363 (398)
                      +... +  ..+|++||++++++++.+....
T Consensus       307 ~~~~~~~~~~~yr~H~L~r~~l~~~l~~~~  336 (903)
T PRK04841        307 FIQRMDDSGEWFRYHPLFASFLRHRCQWEL  336 (903)
T ss_pred             eeEeecCCCCEEehhHHHHHHHHHHHHhcC
Confidence            6632 2  3489999999999999986553

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.82  E-value=8.4e-19  Score=171.82  Aligned_cols=298  Identities=15%  Similarity=0.161  Sum_probs=203.0

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..+.+.|-|...++.|.+.      ...+.++|+.|+|.|||||+.+++. ....-..+.|++.   ...+.++..++..
T Consensus        16 ~~~~~~v~R~rL~~~L~~~------~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlsl---de~dndp~rF~~y   85 (894)
T COG2909          16 VRPDNYVVRPRLLDRLRRA------NDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSL---DESDNDPARFLSY   85 (894)
T ss_pred             CCcccccccHHHHHHHhcC------CCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeec---CCccCCHHHHHHH
Confidence            4577888898877777653      4679999999999999999999998 4555667899982   2235567777777


Q ss_pred             HHHHHhcCCCC--CCCCcc-----------chHHHHHhhC--CceEEEEEeCCC---Ch---HhHHHHHccCCCCCCCcE
Q 015918          125 LLSTLLNDGNM--NKFPNI-----------GLNFQSKRLT--RKKVLIVFDDVN---HP---RQIEFLIGNLDWFASGSR  183 (398)
Q Consensus       125 i~~~l~~~~~~--~~~~~~-----------~~~~l~~~l~--~~~~LlvlDd~~---~~---~~~~~l~~~l~~~~~~~~  183 (398)
                      ++..+..-...  +.....           ....+...+.  .+|+.+||||++   ++   ..++.|....   +++..
T Consensus        86 Li~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~---P~~l~  162 (894)
T COG2909          86 LIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHA---PENLT  162 (894)
T ss_pred             HHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhC---CCCeE
Confidence            77666522111  010000           2222222222  468999999996   22   2355555554   57889


Q ss_pred             EEEEeCChhHHHhcC---CCeeEEcC----CCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          184 ILITARDKQALINCG---VNKIYQIK----ELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       184 iliTsR~~~~~~~~~---~~~~~~l~----~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      +++|||+.+......   ....++|.    .|+.+|+.+||..+. +...+    +...+.+.+.++|++-++.+.+-.+
T Consensus       163 lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~-~l~Ld----~~~~~~L~~~teGW~~al~L~aLa~  237 (894)
T COG2909         163 LVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG-SLPLD----AADLKALYDRTEGWAAALQLIALAL  237 (894)
T ss_pred             EEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC-CCCCC----hHHHHHHHhhcccHHHHHHHHHHHc
Confidence            999999875443321   22334444    589999999998765 22222    2448899999999999999999888


Q ss_pred             ccCCHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCcCCcChHHHHHHHHhcCccccccHHHHhhccC
Q 015918          257 FRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSL  336 (398)
Q Consensus       257 ~~~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~L  336 (398)
                      +.+.  +-......+......-...+....++.||++.+.++..+|++ ..+..+....+.+.  .+....+++|.++||
T Consensus       238 ~~~~--~~~q~~~~LsG~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl-~~f~~eL~~~Ltg~--~ng~amLe~L~~~gL  312 (894)
T COG2909         238 RNNT--SAEQSLRGLSGAASHLSDYLVEEVLDRLPPELRDFLLQTSVL-SRFNDELCNALTGE--ENGQAMLEELERRGL  312 (894)
T ss_pred             cCCC--cHHHHhhhccchHHHHHHHHHHHHHhcCCHHHHHHHHHHHhH-HHhhHHHHHHHhcC--CcHHHHHHHHHhCCC
Confidence            8422  112222333333233345666778999999999999999999 44666666666643  344567999999998


Q ss_pred             ee---eccCCceEecHHHHHHHHHHHhhcCCC
Q 015918          337 IT---ISEYNKIRMHDLMRNMGREIVRQESIN  365 (398)
Q Consensus       337 l~---~~~~~~~~~H~lir~~~~~~~~~~~~~  365 (398)
                      +-   .+++.||++|++|.+|.+.+.+...+.
T Consensus       313 Fl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~  344 (894)
T COG2909         313 FLQRLDDEGQWFRYHHLFAEFLRQRLQRELAA  344 (894)
T ss_pred             ceeeecCCCceeehhHHHHHHHHhhhccccCC
Confidence            76   233668999999999999999876533

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.73  E-value=1.6e-16  Score=163.75  Aligned_cols=328  Identities=16%  Similarity=0.246  Sum_probs=203.9

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechh-hhhcC---CHHHHHHH
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE-AEETG---KLADLRKE  124 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~-~~~~~---~~~~~~~~  124 (398)
                      .++||+.|++.|.+.+..-+.+...++.|.|.+|+|||+++.++.+.+.+..  ..++..... .....   .+.+.+++
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            4799999999999999765547788999999999999999999999877662  233321111 11111   11223333


Q ss_pred             HHHHHhcC----------------------------------CCCCCCCc---c---------chHHHHHh-hCCceEEE
Q 015918          125 LLSTLLND----------------------------------GNMNKFPN---I---------GLNFQSKR-LTRKKVLI  157 (398)
Q Consensus       125 i~~~l~~~----------------------------------~~~~~~~~---~---------~~~~l~~~-l~~~~~Ll  157 (398)
                      +..++...                                  +..+...+   .         ....+... .+.+|.++
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            33333111                                  00000000   0         00111111 24569999


Q ss_pred             EEeCCC--ChHhH---HHHHccCC--CC-CCCcEEEEEeCCh--hHHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCC
Q 015918          158 VFDDVN--HPRQI---EFLIGNLD--WF-ASGSRILITARDK--QALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHP  227 (398)
Q Consensus       158 vlDd~~--~~~~~---~~l~~~l~--~~-~~~~~iliTsR~~--~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~  227 (398)
                      |+||++  ++..+   +.++....  .. .+....+.+.+..  .+.........+.|.||+..+...++...+......
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            999994  33333   33333322  00 1122222233322  122222355789999999999999998877331222


Q ss_pred             CcchHHHHHHHHHHcCCChHHHHHHHHHhccC-------CHHHHHHHHHHhccCC-hhhHHHHHHHhHhcCchHHHHHHH
Q 015918          228 DASYIELTHEAIKYAQGVPIALKILGRFLFRK-------RKEVWENAISKLEMVP-QMEIQEVLKISYDGLDDKEKNIFL  299 (398)
Q Consensus       228 ~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~-------~~~~~~~~~~~l~~~~-~~~v~~~l~~~~~~L~~~~~~~l~  299 (398)
                         ..+....+++++.|||+++..+.+.+.+.       ....|......+...+ .+.+...+...++.||...++++.
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               24668999999999999999999999763       2345554444443322 233555789999999999999999


Q ss_pred             HhhcCcCCcChHHHHHHHHhcCc-cccccHHHHhhccCeeec-----c-CC--c-eEe-cHHHHHHHHHHHhhcCCCCCC
Q 015918          300 DIACFLVGEDRDIVTKYLNACEF-FATSGIEVLVDKSLITIS-----E-YN--K-IRM-HDLMRNMGREIVRQESINDPS  368 (398)
Q Consensus       300 ~la~~~~~~~~~~l~~~~~~~~~-~~~~~l~~L~~~~Ll~~~-----~-~~--~-~~~-H~lir~~~~~~~~~~~~~~~~  368 (398)
                      .+||++..|+.+.+..++..... ......+.|....++...     . +.  . |++ |+.+|+.++..+.++      
T Consensus       316 ~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~------  389 (849)
T COG3899         316 AAACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPES------  389 (849)
T ss_pred             HHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchh------
Confidence            99999999999999999864332 233344444444444321     0 01  1 334 888888888776544      


Q ss_pred             CcccccCchhHHHHHHhCcCc
Q 015918          369 KRSRLWHHKEIYEVLTENMVS  389 (398)
Q Consensus       369 ~~~~~~~~~~~~~~l~~~~~~  389 (398)
                        +|...|.+|+..|++..+.
T Consensus       390 --~rq~~H~~i~~lL~~~~~~  408 (849)
T COG3899         390 --QRQYLHLRIGQLLEQNIPE  408 (849)
T ss_pred             --hHHHHHHHHHHHHHHhCCc
Confidence              3557799999999988763

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.64  E-value=5.6e-14  Score=135.05  Aligned_cols=285  Identities=15%  Similarity=0.061  Sum_probs=167.3

Q ss_pred             cccCcccccchhHHHHHHHhccCC-CCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..|+.|+||++|+++|...+.... ....+.++|+|++|+|||++++.+++.+....  -..+++.    +....+...+
T Consensus        27 ~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in----~~~~~~~~~~  102 (394)
T PRK00411         27 YVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN----CQIDRTRYAI  102 (394)
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE----CCcCCCHHHH
Confidence            466789999999999999985321 14556789999999999999999999876654  2234444    3333456677


Q ss_pred             HHHHHHHHhcCCCCCCC--CccchHHHHHhhC--CceEEEEEeCCCChH------hHHHHHccCCCCCC-CcEEEEEeCC
Q 015918          122 RKELLSTLLNDGNMNKF--PNIGLNFQSKRLT--RKKVLIVFDDVNHPR------QIEFLIGNLDWFAS-GSRILITARD  190 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~--~~~~~~~l~~~l~--~~~~LlvlDd~~~~~------~~~~l~~~l~~~~~-~~~iliTsR~  190 (398)
                      +..++.++.........  .......+...+.  +++++||||+++...      .+..+......... ...+|.++..
T Consensus       103 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~  182 (394)
T PRK00411        103 FSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSD  182 (394)
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECC
Confidence            77888777542211111  1113334444443  467899999997543      23333332221111 3335555554


Q ss_pred             hhHHHhc-------CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHc---CC-ChHHHHHHHHHhc--
Q 015918          191 KQALINC-------GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYA---QG-VPIALKILGRFLF--  257 (398)
Q Consensus       191 ~~~~~~~-------~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~---~g-~Pl~i~~l~~~l~--  257 (398)
                      .......       -....+.++|++.++..+++..++.....+.....+.++.+++.+   .| .+.++..+-.+..  
T Consensus       183 ~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a  262 (394)
T PRK00411        183 LTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIA  262 (394)
T ss_pred             cchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            4322211       123568899999999999998876322111223345566666655   34 4555555543321  


Q ss_pred             --c-C---CHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCc----CCcChHHHHHH-------HHhc
Q 015918          258 --R-K---RKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFL----VGEDRDIVTKY-------LNAC  320 (398)
Q Consensus       258 --~-~---~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~----~~~~~~~l~~~-------~~~~  320 (398)
                        + .   ....+..+.+.+       -...+...+..||...+.+|..++...    ..++...+...       .+.+
T Consensus       263 ~~~~~~~I~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~  335 (394)
T PRK00411        263 EREGSRKVTEEDVRKAYEKS-------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYE  335 (394)
T ss_pred             HHcCCCCcCHHHHHHHHHHH-------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCC
Confidence              1 1   233444433333       123345678999999999988776543    23454444432       1111


Q ss_pred             C---ccccccHHHHhhccCeeec
Q 015918          321 E---FFATSGIEVLVDKSLITIS  340 (398)
Q Consensus       321 ~---~~~~~~l~~L~~~~Ll~~~  340 (398)
                      .   ......++.|...|||...
T Consensus       336 ~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        336 PRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             cCcHHHHHHHHHHHHhcCCeEEE
Confidence            1   1234579999999999854

>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=99.60  E-value=8e-15  Score=130.31  Aligned_cols=197  Identities=20%  Similarity=0.191  Sum_probs=103.4

Q ss_pred             ccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH------HH
Q 015918           50 LVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL------RK  123 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~------~~  123 (398)
                      |+||+.|++.|.+++..   +..+.++|+||.|+|||+|++++.+...+.....+|+....... ......+      ..
T Consensus         1 F~gR~~el~~l~~~l~~---~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~-~~~~~~~~~~~~~~~   76 (234)
T PF01637_consen    1 FFGREKELEKLKELLES---GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESN-ESSLRSFIEETSLAD   76 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH-----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSH-HHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHh---hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchh-hhHHHHHHHHHHHHH
Confidence            89999999999999976   34678999999999999999999998755443444544221111 0011111      11


Q ss_pred             HHHHHHhcCCCCC----------CCCccchHHHHHhhC--CceEEEEEeCCCChH-----------hHHHHHccCCCCCC
Q 015918          124 ELLSTLLNDGNMN----------KFPNIGLNFQSKRLT--RKKVLIVFDDVNHPR-----------QIEFLIGNLDWFAS  180 (398)
Q Consensus       124 ~i~~~l~~~~~~~----------~~~~~~~~~l~~~l~--~~~~LlvlDd~~~~~-----------~~~~l~~~l~~~~~  180 (398)
                      .+...+.......          .........+...+.  +++++|||||++...           .+..+...... ..
T Consensus        77 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~  155 (234)
T PF01637_consen   77 ELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQ  155 (234)
T ss_dssp             HCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----T
T ss_pred             HHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cC
Confidence            1111121111100          011112333333332  345999999996443           12222222222 33


Q ss_pred             CcEEEEEeCChhHHHh--------cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          181 GSRILITARDKQALIN--------CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       181 ~~~iliTsR~~~~~~~--------~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      ...+++++........        ......+.+++|+.+++.+++....... ...+..++..+.++..++|+|..|..+
T Consensus       156 ~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~~  234 (234)
T PF01637_consen  156 NVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQEL  234 (234)
T ss_dssp             TEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHHH
T ss_pred             CceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhcC
Confidence            4445566555544433        2344559999999999999998865333 111234677899999999999998753

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

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.58  E-value=9.3e-14  Score=128.73  Aligned_cols=260  Identities=15%  Similarity=0.142  Sum_probs=157.8

Q ss_pred             CcccccchhHHHHHHHhccCCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      ..|+|++++++.|..++.....  ...+.++++||+|+|||+||+.+++.+...+   .+..    .........+. ..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~---~~~~----~~~~~~~~~l~-~~   75 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL---KITS----GPALEKPGDLA-AI   75 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCE---EEec----cchhcCchhHH-HH
Confidence            5799999999999998863211  3456789999999999999999998875442   1111    10001111111 11


Q ss_pred             HHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCC-------------------CCCCCcEE
Q 015918          126 LSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLD-------------------WFASGSRI  184 (398)
Q Consensus       126 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~-------------------~~~~~~~i  184 (398)
                      +..                     + +...+|+||+++..  ...+.+...+.                   ...+.+.|
T Consensus        76 l~~---------------------~-~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li  133 (305)
T TIGR00635        76 LTN---------------------L-EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLV  133 (305)
T ss_pred             HHh---------------------c-ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEE
Confidence            111                     1 23447888888632  12222221110                   00123334


Q ss_pred             EEEeCChhHHHhc--CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHH
Q 015918          185 LITARDKQALINC--GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKE  262 (398)
Q Consensus       185 liTsR~~~~~~~~--~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~  262 (398)
                      ..|++...+....  .....+.+++++.++..+++.+.+...  ......+.+..+++.|+|.|..+..++..+...   
T Consensus       134 ~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~--~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~---  208 (305)
T TIGR00635       134 GATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLL--NVEIEPEAALEIARRSRGTPRIANRLLRRVRDF---  208 (305)
T ss_pred             EecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHh--CCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHH---
Confidence            4455543222211  234567899999999999998877422  223445778999999999998887666644210   


Q ss_pred             HHHHHHHHhccCChhhHHHH---HHHhHhcCchHHHHHHH-HhhcCcCC-cChHHHHHHHHhcCccccccHH-HHhhccC
Q 015918          263 VWENAISKLEMVPQMEIQEV---LKISYDGLDDKEKNIFL-DIACFLVG-EDRDIVTKYLNACEFFATSGIE-VLVDKSL  336 (398)
Q Consensus       263 ~~~~~~~~l~~~~~~~v~~~---l~~~~~~L~~~~~~~l~-~la~~~~~-~~~~~l~~~~~~~~~~~~~~l~-~L~~~~L  336 (398)
                        .. ...-.......+...   +...+..+++..+.+|. .++.+..+ ++.+.+...++.+....+..++ .|++++|
T Consensus       209 --a~-~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~l  285 (305)
T TIGR00635       209 --AQ-VRGQKIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGF  285 (305)
T ss_pred             --HH-HcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCC
Confidence              00 000001111111111   34456778888888777 44555444 8899999999988888888899 6999999


Q ss_pred             eeeccCCce
Q 015918          337 ITISEYNKI  345 (398)
Q Consensus       337 l~~~~~~~~  345 (398)
                      +...+.|++
T Consensus       286 i~~~~~g~~  294 (305)
T TIGR00635       286 LQRTPRGRI  294 (305)
T ss_pred             cccCCchhh
Confidence            987766654

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=99.57  E-value=2.7e-12  Score=122.09  Aligned_cols=285  Identities=18%  Similarity=0.116  Sum_probs=160.9

Q ss_pred             cccCcccccchhHHHHHHHhccCC-CCCceEEEEEcCCCccHHHHHHHHHHHhhccCc------ceEEEeechhhhhcCC
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE------GSYFAHNVREAEETGK  117 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~------~~~~~~~~~~~~~~~~  117 (398)
                      ..|+.|+||+.|++.|..++.... ....+.+.|+||+|+|||++++.+++.+.....      ..+|+.    +....+
T Consensus        12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in----~~~~~~   87 (365)
T TIGR02928        12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN----CQILDT   87 (365)
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEE----CCCCCC
Confidence            345589999999999999986421 144567999999999999999999988654322      244544    333345


Q ss_pred             HHHHHHHHHHHHhcCC-CCCCC--C-ccchHHHHHhh--CCceEEEEEeCCCChH-----hHHHHHccC--CCC-CCCcE
Q 015918          118 LADLRKELLSTLLNDG-NMNKF--P-NIGLNFQSKRL--TRKKVLIVFDDVNHPR-----QIEFLIGNL--DWF-ASGSR  183 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~-~~~~~--~-~~~~~~l~~~l--~~~~~LlvlDd~~~~~-----~~~~l~~~l--~~~-~~~~~  183 (398)
                      ...++..++.++...+ ..+..  . ......+...+  .+++++||||+++...     .+..+....  ... .....
T Consensus        88 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~  167 (365)
T TIGR02928        88 LYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVG  167 (365)
T ss_pred             HHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEE
Confidence            5677777777774211 11011  1 11223333333  3568899999997651     122222221  111 13344


Q ss_pred             EEEEeCChhHHHhc-----C--CCeeEEcCCCChhhhHHHHHHhhcC---CCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          184 ILITARDKQALINC-----G--VNKIYQIKELVHVDALKLLNQCAFG---RDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       184 iliTsR~~~~~~~~-----~--~~~~~~l~~L~~~e~~~Ll~~~~~~---~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +|+++........+     .  ....+.++|++.++..+++..++..   .....+..-+....++..+.|.|..+..++
T Consensus       168 lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l  247 (365)
T TIGR02928       168 VIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLL  247 (365)
T ss_pred             EEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHH
Confidence            55555444322111     1  1256889999999999999987631   111222222344456666779997665444


Q ss_pred             HHhcc------C---CHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCc----CCcChHHHHH-H---
Q 015918          254 RFLFR------K---RKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFL----VGEDRDIVTK-Y---  316 (398)
Q Consensus       254 ~~l~~------~---~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~----~~~~~~~l~~-~---  316 (398)
                      .....      .   +......+.+.+       -.......+..|+...+.++..++.+.    ..+....+.. +   
T Consensus       248 ~~a~~~a~~~~~~~it~~~v~~a~~~~-------~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~  320 (365)
T TIGR02928       248 RVAGEIAEREGAERVTEDHVEKAQEKI-------EKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEV  320 (365)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHH-------HHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Confidence            33211      1   123333333332       123345677889998888777665321    1244443333 1   


Q ss_pred             HHhcC------ccccccHHHHhhccCeeec
Q 015918          317 LNACE------FFATSGIEVLVDKSLITIS  340 (398)
Q Consensus       317 ~~~~~------~~~~~~l~~L~~~~Ll~~~  340 (398)
                      +...+      .....+++.|...||++..
T Consensus       321 ~~~~~~~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       321 CEDIGVDPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHhcCCeEEE
Confidence            11111      1234579999999999965

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=99.54  E-value=3.2e-13  Score=126.14  Aligned_cols=262  Identities=14%  Similarity=0.126  Sum_probs=161.8

Q ss_pred             cccCcccccchhHHHHHHHhccC--CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG--LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~--~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+|+||+.+++.+..++...  .....+.++|+||+|+|||+||+.+++.+...+   .+..    ...... ...+
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~---~~~~----~~~~~~-~~~l   93 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNI---RITS----GPALEK-PGDL   93 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCe---EEEe----cccccC-hHHH
Confidence            45577999999999998888632  114467889999999999999999999875442   1221    000000 1111


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--hHHHHHccCC-------------------CCCCC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--QIEFLIGNLD-------------------WFASG  181 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~~~~l~~~l~-------------------~~~~~  181 (398)
                      ..++.                     .+ ....+|+||+++...  ..+.+...+.                   ...+.
T Consensus        94 ~~~l~---------------------~l-~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~  151 (328)
T PRK00080         94 AAILT---------------------NL-EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPF  151 (328)
T ss_pred             HHHHH---------------------hc-ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCc
Confidence            11111                     11 234588889886422  1111111100                   00123


Q ss_pred             cEEEEEeCChhHHHhc--CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccC
Q 015918          182 SRILITARDKQALINC--GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRK  259 (398)
Q Consensus       182 ~~iliTsR~~~~~~~~--~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~  259 (398)
                      +.|..|++.......+  .....+.+++++.++..+++.+.+....  ....++.+..+++.|+|.|..+..+...+.. 
T Consensus       152 ~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~--~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~-  228 (328)
T PRK00080        152 TLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILG--VEIDEEGALEIARRSRGTPRIANRLLRRVRD-  228 (328)
T ss_pred             eEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHHcCCCchHHHHHHHHHHH-
Confidence            3344555543322211  2345789999999999999998764322  2344577999999999999877777665422 


Q ss_pred             CHHHHHHHHHHhccCChhhHH---HHHHHhHhcCchHHHHHHH-HhhcCcCC-cChHHHHHHHHhcCccccccHH-HHhh
Q 015918          260 RKEVWENAISKLEMVPQMEIQ---EVLKISYDGLDDKEKNIFL-DIACFLVG-EDRDIVTKYLNACEFFATSGIE-VLVD  333 (398)
Q Consensus       260 ~~~~~~~~~~~l~~~~~~~v~---~~l~~~~~~L~~~~~~~l~-~la~~~~~-~~~~~l~~~~~~~~~~~~~~l~-~L~~  333 (398)
                          |.... .-.......+.   ..+...+..|++..+..+. .+..|..+ +..+.+...++.+....+..++ .|++
T Consensus       229 ----~a~~~-~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        229 ----FAQVK-GDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQ  303 (328)
T ss_pred             ----HHHHc-CCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHH
Confidence                11000 00111112222   2334556778888888886 66666554 9999999999888888888888 9999


Q ss_pred             ccCeeeccCCc
Q 015918          334 KSLITISEYNK  344 (398)
Q Consensus       334 ~~Ll~~~~~~~  344 (398)
                      .+|++....|+
T Consensus       304 ~~li~~~~~gr  314 (328)
T PRK00080        304 QGFIQRTPRGR  314 (328)
T ss_pred             cCCcccCCchH
Confidence            99998776664

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

Probab=99.46  E-value=6.7e-12  Score=114.17  Aligned_cols=180  Identities=13%  Similarity=0.048  Sum_probs=109.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH--
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS--  147 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~--  147 (398)
                      .+.+.++|+|++|+|||||++.+++.+...-....++.     ....+..+++..++..++..... .........+.  
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~-----~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~  114 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLV-----NTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDF  114 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeee-----CCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHH
Confidence            34568999999999999999999988763311222222     12345566777777666543221 11111122222  


Q ss_pred             --H-hhCCceEEEEEeCCCChH--hHHHHHccCC---CCCCCcEEEEEeCChhHHHhc----------CCCeeEEcCCCC
Q 015918          148 --K-RLTRKKVLIVFDDVNHPR--QIEFLIGNLD---WFASGSRILITARDKQALINC----------GVNKIYQIKELV  209 (398)
Q Consensus       148 --~-~l~~~~~LlvlDd~~~~~--~~~~l~~~l~---~~~~~~~iliTsR~~~~~~~~----------~~~~~~~l~~L~  209 (398)
                        . ...+++.+||+||++...  .++.+.....   .......+++|.... .....          .....+.+++++
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              2 235778999999997543  3443322111   112233455555433 11111          124567899999


Q ss_pred             hhhhHHHHHHhhcCCC--CCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          210 HVDALKLLNQCAFGRD--HPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       210 ~~e~~~Ll~~~~~~~~--~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      .+|..+++...+....  .......+..+.+++.|+|+|..|+.++..+
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            9999999987663222  1223556889999999999999999999876

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.

>PF05729 NACHT: NACHT domain

Probab=99.33  E-value=2.2e-11  Score=102.09  Aligned_cols=142  Identities=17%  Similarity=0.227  Sum_probs=86.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQ  146 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l  146 (398)
                      ++++|+|++|+||||+++.++..+....      ...+|+. .+..........+...+.........  .    ....+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~~~--~----~~~~~   73 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFS-LRDISDSNNSRSLADLLFDQLPESIA--P----IEELL   73 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEe-ehhhhhccccchHHHHHHHhhccchh--h----hHHHH
Confidence            5789999999999999999999866554      2333433 33333222222333333333322111  0    11111


Q ss_pred             H-HhhCCceEEEEEeCCCChHh---------HHHHHc-cCCC-CCCCcEEEEEeCChhH---HHhcCCCeeEEcCCCChh
Q 015918          147 S-KRLTRKKVLIVFDDVNHPRQ---------IEFLIG-NLDW-FASGSRILITARDKQA---LINCGVNKIYQIKELVHV  211 (398)
Q Consensus       147 ~-~~l~~~~~LlvlDd~~~~~~---------~~~l~~-~l~~-~~~~~~iliTsR~~~~---~~~~~~~~~~~l~~L~~~  211 (398)
                      . .....++++||||++++...         +..++. .+.. ..+++++++|+|....   .........+.|.+|+.+
T Consensus        74 ~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   74 QELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             HHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHH
Confidence            1 22356899999999974322         222222 2222 3568999999998755   333344567999999999


Q ss_pred             hhHHHHHHhh
Q 015918          212 DALKLLNQCA  221 (398)
Q Consensus       212 e~~~Ll~~~~  221 (398)
                      +..+++.+..
T Consensus       154 ~~~~~~~~~f  163 (166)
T PF05729_consen  154 DIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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

Probab=99.30  E-value=1.2e-10  Score=106.15  Aligned_cols=171  Identities=18%  Similarity=0.293  Sum_probs=106.1

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      .-.++++|-...+.++.+   +   +.....++|||||+||||||+.++......|...--+.     +....+..+++.
T Consensus        27 vGQ~HLlg~~~~lrr~v~---~---~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~-----~gvkdlr~i~e~   95 (436)
T COG2256          27 VGQEHLLGEGKPLRRAVE---A---GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT-----SGVKDLREIIEE   95 (436)
T ss_pred             cChHhhhCCCchHHHHHh---c---CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc-----ccHHHHHHHHHH
Confidence            344556665555555443   3   56778889999999999999999988766653211111     111122222211


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeCChhH-----HHhc
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITARDKQA-----LINC  197 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR~~~~-----~~~~  197 (398)
                                          .-.....+++++|++|+++  +-.+-+.|++.+-   .+.-++|-+..+++     ....
T Consensus        96 --------------------a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~ALl  152 (436)
T COG2256          96 --------------------ARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPALL  152 (436)
T ss_pred             --------------------HHHHHhcCCceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHHh
Confidence                                1122334789999999997  5556677776653   45555553333221     1123


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCC-----CCCcchHHHHHHHHHHcCCChHHH
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRD-----HPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~-----~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      +.+..+.+++|+.++..+++.+.+....     ......++..+.++..++|-....
T Consensus       153 SR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~a  209 (436)
T COG2256         153 SRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRA  209 (436)
T ss_pred             hhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHH
Confidence            4678899999999999999988331111     111234678899999999976643

>PF14516 AAA_35: AAA-like domain

Probab=99.26  E-value=4e-09  Score=98.33  Aligned_cols=285  Identities=10%  Similarity=0.112  Sum_probs=157.7

Q ss_pred             ccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhh-hcCCHHHHH
Q 015918           44 FETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAE-ETGKLADLR  122 (398)
Q Consensus        44 ~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~  122 (398)
                      +.+.+.+|+|...-+.+.+.+..    ....+.|.||..+|||+|...+.+.+.+.--..+++....-.+ ...+...++
T Consensus         7 ~~~~~~Yi~R~~~e~~~~~~i~~----~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~   82 (331)
T PF14516_consen    7 PLDSPFYIERPPAEQECYQEIVQ----PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFL   82 (331)
T ss_pred             CCCCCcccCchHHHHHHHHHHhc----CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHH
Confidence            36777889999677777777653    2468999999999999999999999866544455655322111 123455555


Q ss_pred             HHHHHHHhcCCCCCC-CC----------ccchHHHHHh-h--CCceEEEEEeCCCCh----HhHHHHHccCCC-------
Q 015918          123 KELLSTLLNDGNMNK-FP----------NIGLNFQSKR-L--TRKKVLIVFDDVNHP----RQIEFLIGNLDW-------  177 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~-~~----------~~~~~~l~~~-l--~~~~~LlvlDd~~~~----~~~~~l~~~l~~-------  177 (398)
                      ..++..+......+. ..          ......+... +  .+++++|+||+++..    .....|+..+..       
T Consensus        83 ~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~  162 (331)
T PF14516_consen   83 RWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKN  162 (331)
T ss_pred             HHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhccc
Confidence            555544433321111 00          0122222222 2  368999999999632    112233322210       


Q ss_pred             C--CCCcEEEEEeCChhHHH-h-----cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          178 F--ASGSRILITARDKQALI-N-----CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       178 ~--~~~~~iliTsR~~~~~~-~-----~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      .  -...++++....+.... .     .+....+.|++|+.+|+.+|+..+..  ...    ....+.+...++|+|+.+
T Consensus       163 ~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~--~~~----~~~~~~l~~~tgGhP~Lv  236 (331)
T PF14516_consen  163 NPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGL--EFS----QEQLEQLMDWTGGHPYLV  236 (331)
T ss_pred             CcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhc--cCC----HHHHHHHHHHHCCCHHHH
Confidence            0  11223333332221111 1     13446789999999999999987642  111    233999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhccCChhhHHHHHHHhHhcC--chHHHHHHHHhhcCcCCcChHHHHHHHHhcCcccccc
Q 015918          250 KILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGL--DDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSG  327 (398)
Q Consensus       250 ~~l~~~l~~~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L--~~~~~~~l~~la~~~~~~~~~~l~~~~~~~~~~~~~~  327 (398)
                      ..++..+..... ............ ......-++..+..|  .++.+.++..+-.-+..++.             ....
T Consensus       237 ~~~~~~l~~~~~-~~~~l~~~a~~~-~~~~~~hL~~l~~~L~~~~~L~~~~~~il~~~~~~~~-------------~~~~  301 (331)
T PF14516_consen  237 QKACYLLVEEQI-TLEQLLEEAITD-NGIYNDHLDRLLDRLQQNPELLEAYQQILFSGEPVDL-------------DSDD  301 (331)
T ss_pred             HHHHHHHHHccC-cHHHHHHHHHHh-cccHHHHHHHHHHHHccCHHHHHHHHHHHhCCCCccc-------------ChHH
Confidence            999999976421 122222221111 111122333334444  34445444433222111111             1234


Q ss_pred             HHHHhhccCeeeccCCceEe-cHHHHHH
Q 015918          328 IEVLVDKSLITISEYNKIRM-HDLMRNM  354 (398)
Q Consensus       328 l~~L~~~~Ll~~~~~~~~~~-H~lir~~  354 (398)
                      ...|...|||... +|.+.. .++-|+|
T Consensus       302 ~~~L~~~GLV~~~-~~~~~~~n~iY~~y  328 (331)
T PF14516_consen  302 IYKLESLGLVKRD-GNQLEVRNPIYRQY  328 (331)
T ss_pred             HHHHHHCCeEEEe-CCEEEEEcHHHHHH
Confidence            6789999999998 554444 6666665

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.23  E-value=2.6e-09  Score=106.21  Aligned_cols=203  Identities=12%  Similarity=0.077  Sum_probs=116.0

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.++||.+..++.|.+++..+  .-...++++|+.|+||||+++.+++.+...... ....    +..+.....+...
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~g--RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~-~~~P----CG~C~sCr~I~~G   85 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGG--RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGV-TSQP----CGVCRACREIDEG   85 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcC--CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCC-CCCC----CcccHHHHHHhcC
Confidence            34567999999999999999763  235567899999999999999999886422100 0000    0000000000000


Q ss_pred             HHHHHhcCCCCCCC-CccchHHHHH----hhCCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCChh-HH-H
Q 015918          125 LLSTLLNDGNMNKF-PNIGLNFQSK----RLTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDKQ-AL-I  195 (398)
Q Consensus       125 i~~~l~~~~~~~~~-~~~~~~~l~~----~l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~~-~~-~  195 (398)
                      -..++......... .+...+.+..    -..++.-++|||+++...  .+..|+..+.......++|++|.+.. +. .
T Consensus        86 ~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~T  165 (830)
T PRK07003         86 RFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVT  165 (830)
T ss_pred             CCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccch
Confidence            00000000000000 0001111111    012345689999998543  46666666554456777777776652 22 2


Q ss_pred             hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH-HHHHHHHHh
Q 015918          196 NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI-ALKILGRFL  256 (398)
Q Consensus       196 ~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~l~~~l  256 (398)
                      ..+.+..+.+.+++.++..+.+.+.+....  .....+.+..|++.++|... ++.++-+.+
T Consensus       166 IrSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg--I~id~eAL~lIA~~A~GsmRdALsLLdQAi  225 (830)
T PRK07003        166 VLSRCLQFNLKQMPAGHIVSHLERILGEER--IAFEPQALRLLARAAQGSMRDALSLTDQAI  225 (830)
T ss_pred             hhhheEEEecCCcCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            235678899999999999999988763222  22345778899999998775 554444433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.21  E-value=2.9e-09  Score=100.14  Aligned_cols=201  Identities=13%  Similarity=0.023  Sum_probs=111.3

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-c-ceEEEeechhhhhcCCHHHHHH-
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-E-GSYFAHNVREAEETGKLADLRK-  123 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~-~~~~~~~~~~~~~~~~~~~~~~-  123 (398)
                      -..|+|++..++.+.+++..   +..+.++++||+|+||||+|+.+++.+.... . ..++++... .... ....+.. 
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~---~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~-~~~~-~~~~~~~~   88 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDS---PNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVAD-FFDQ-GKKYLVED   88 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhC---CCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhh-hhhc-chhhhhcC
Confidence            36789999999999999875   3445688999999999999999998865432 1 123333110 0000 0000000 


Q ss_pred             -HHHHHHhcC-CCCCCCCccchHHHHHhh-----CCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCChh-H
Q 015918          124 -ELLSTLLND-GNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDKQ-A  193 (398)
Q Consensus       124 -~i~~~l~~~-~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~~-~  193 (398)
                       ......... .......+.....+....     ...+-+|||||++...  ....+...+......+++|+|+..+. .
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~  168 (337)
T PRK12402         89 PRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKL  168 (337)
T ss_pred             cchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhC
Confidence             000000000 000000000111111111     1234589999997442  23333333332344566777765432 1


Q ss_pred             H-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          194 L-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       194 ~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      . ...+....+.+.+++.++..+++...+......  ...+.+..+++.++|++..+.....
T Consensus       169 ~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~~~al~~l~~~~~gdlr~l~~~l~  228 (337)
T PRK12402        169 IPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YDDDGLELIAYYAGGDLRKAILTLQ  228 (337)
T ss_pred             chhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            1 222355778999999999999998866332222  3457799999999999877654443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.19  E-value=2.5e-09  Score=103.00  Aligned_cols=180  Identities=17%  Similarity=0.246  Sum_probs=109.3

Q ss_pred             ccCcccccchhHHH---HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           46 TENKLVGVDSRIEE---ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        46 ~~~~fvGR~~el~~---l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      .-.+|+|++..+..   |..++..   .....++|+||+|+||||||+.+++.....|.   .+.    .. .... +.+
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~---~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~---~l~----a~-~~~~-~~i   77 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEA---GRLSSMILWGPPGTGKTTLARIIAGATDAPFE---ALS----AV-TSGV-KDL   77 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHc---CCCceEEEECCCCCCHHHHHHHHHHHhCCCEE---EEe----cc-cccH-HHH
Confidence            34568999888766   7777765   44567889999999999999999988654431   121    00 0111 111


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEE-E-eCChh--H-HH
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILI-T-ARDKQ--A-LI  195 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~ili-T-sR~~~--~-~~  195 (398)
                      ..++.....                ....+++.+|+||+++..  ...+.+...+.   .+..+++ + |.++.  + ..
T Consensus        78 r~ii~~~~~----------------~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         78 REVIEEARQ----------------RRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHHHHHHHH----------------hhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHH
Confidence            112111110                111356789999999743  34455555443   2333444 2 33321  1 12


Q ss_pred             hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCC-CcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          196 NCGVNKIYQIKELVHVDALKLLNQCAFGRDHP-DASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       196 ~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~-~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ..+....+.+.+++.++...++.+.+...... ....++....+++.++|++..+..+...+
T Consensus       139 L~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~  200 (413)
T PRK13342        139 LLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELA  200 (413)
T ss_pred             HhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            22455789999999999999998765321111 13446778899999999998776555443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.18  E-value=7.6e-09  Score=96.55  Aligned_cols=230  Identities=12%  Similarity=0.078  Sum_probs=127.5

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELL  126 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (398)
                      -.+++|++..++.+..++..   +..+.++|+|++|+||||+++.+++.+........++...  .+..... +......
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~---~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~--~~~~~~~-~~~~~~i   89 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKE---KNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELN--ASDERGI-DVIRNKI   89 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhC---CCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEec--cccccch-HHHHHHH
Confidence            35689999999999999975   3345679999999999999999998864332112222210  1111111 1111121


Q ss_pred             HHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChh-H-HHhcCCCee
Q 015918          127 STLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQ-A-LINCGVNKI  202 (398)
Q Consensus       127 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~-~-~~~~~~~~~  202 (398)
                      ..+.....              .....+-+|+||+++..  .....+...+......+.+|+++.... . ....+....
T Consensus        90 ~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~  155 (319)
T PRK00440         90 KEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAV  155 (319)
T ss_pred             HHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhe
Confidence            22211110              00123558999999743  233444444443345566777664321 1 112234557


Q ss_pred             EEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc-CCHHHHHHHHHHhccCChhhHHH
Q 015918          203 YQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR-KRKEVWENAISKLEMVPQMEIQE  281 (398)
Q Consensus       203 ~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~~~~~~v~~  281 (398)
                      +++++++.++....+...+.....  ...++.+..+++.++|++.-+......+.. .....-..............++.
T Consensus       156 ~~~~~l~~~ei~~~l~~~~~~~~~--~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~~~~it~~~v~~~~~~~~~~~i~~  233 (319)
T PRK00440        156 FRFSPLKKEAVAERLRYIAENEGI--EITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIRE  233 (319)
T ss_pred             eeeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCCHHHHHH
Confidence            899999999999999887633222  234577999999999998875544433321 11111111122223334455666


Q ss_pred             HHHHhHhcCchHHHHHH
Q 015918          282 VLKISYDGLDDKEKNIF  298 (398)
Q Consensus       282 ~l~~~~~~L~~~~~~~l  298 (398)
                      +++.....-....+..+
T Consensus       234 l~~~~~~~~~~~a~~~l  250 (319)
T PRK00440        234 MIELALNGDFTEAREKL  250 (319)
T ss_pred             HHHHHHcCCHHHHHHHH
Confidence            65555444333444443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.17  E-value=1.2e-08  Score=96.60  Aligned_cols=199  Identities=13%  Similarity=0.049  Sum_probs=112.7

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-.+++|.+..++.+.+.+..+  .-++.++++||+|+||||+|+.+++.+........- .    .........+....
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~--~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~-p----c~~c~~c~~~~~~~   86 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLG--RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSN-P----CRKCIICKEIEKGL   86 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcC--CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCC-C----CCCCHHHHHHhcCC
Confidence            4467999999999999988753  234567899999999999999999886422100000 0    00000000000000


Q ss_pred             HHHHhcCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCChh-HHH-h
Q 015918          126 LSTLLNDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDKQ-ALI-N  196 (398)
Q Consensus       126 ~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~~-~~~-~  196 (398)
                      ..++..........-..+..+...+     .++.-++|||+++...  ....++..+...+....+|++|.+.. +.. .
T Consensus        87 ~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI  166 (363)
T PRK14961         87 CLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTI  166 (363)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHH
Confidence            0000000000000000111111111     2345699999998544  45566666655456666776665442 222 2


Q ss_pred             cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          197 CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       197 ~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      .+.+..+++.+++.++..+.+...+...+  ....++.+..+++.++|.|..+..+.
T Consensus       167 ~SRc~~~~~~~l~~~el~~~L~~~~~~~g--~~i~~~al~~ia~~s~G~~R~al~~l  221 (363)
T PRK14961        167 LSRCLQFKLKIISEEKIFNFLKYILIKES--IDTDEYALKLIAYHAHGSMRDALNLL  221 (363)
T ss_pred             HhhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            24567899999999999999887663322  12334668889999999997655444

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.16  E-value=9.4e-09  Score=104.18  Aligned_cols=187  Identities=17%  Similarity=0.099  Sum_probs=115.3

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc-c--eEEEeechh-----------
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE-G--SYFAHNVRE-----------  111 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~--~~~~~~~~~-----------  111 (398)
                      .-.++||.+..++.|.+++..+.  -...++++|++|+||||+|+.+++.+..... .  .+..|..+.           
T Consensus        14 tFddIIGQe~Iv~~LknaI~~~r--l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALTQQR--LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC--CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            44679999999999999987632  2345589999999999999999998643210 0  001110000           


Q ss_pred             ---hhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEE
Q 015918          112 ---AEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       112 ---~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~ili  186 (398)
                         ........ .++.+...+.                ..-..++.-++|||+++.  ......|+..+-.....+++|+
T Consensus        92 EidAas~~kVD-dIReLie~v~----------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFIL  154 (944)
T PRK14949         92 EVDAASRTKVD-DTRELLDNVQ----------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLL  154 (944)
T ss_pred             EeccccccCHH-HHHHHHHHHH----------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence               00000000 0111111110                001135667999999974  4456666666655455666666


Q ss_pred             EeCCh-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          187 TARDK-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       187 TsR~~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +|.+. .+. ...+.+..+.+.+++.++..+.+...+...  ......+.+..|++.++|.|.-+..++
T Consensus       155 aTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E--gI~~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        155 ATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE--QLPFEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             ECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55443 333 223466889999999999999998766322  223445778999999999998666554

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.15  E-value=1.3e-08  Score=100.07  Aligned_cols=183  Identities=20%  Similarity=0.132  Sum_probs=115.0

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc---------------------ce
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE---------------------GS  103 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~---------------------~~  103 (398)
                      ..-.+++|.+...+.|.+++..+.  -...++++||+|+||||+|+.+++.+.....                     .+
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~gr--l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGR--LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            344679999999999999997642  3467799999999999999999988532210                     11


Q ss_pred             EEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCC
Q 015918          104 YFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASG  181 (398)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~  181 (398)
                      +.+.    .+......++ +.+.....                ..-..++.-++|||+++..  .....+...+......
T Consensus        90 iEID----AAs~~~VddI-Reli~~~~----------------y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~  148 (702)
T PRK14960         90 IEID----AASRTKVEDT-RELLDNVP----------------YAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEH  148 (702)
T ss_pred             EEec----ccccCCHHHH-HHHHHHHh----------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            1111    0000011110 01111000                0011345669999999854  4566666666554566


Q ss_pred             cEEEEEeCChh-HH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          182 SRILITARDKQ-AL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       182 ~~iliTsR~~~-~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      ..+|++|.+.. +. ...+.+..+++.+++.++..+.+...+...+  .....+.+..+++.++|.+..+..+
T Consensus       149 v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEg--I~id~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        149 VKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQ--IAADQDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             cEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            67777776542 21 2235678899999999999999988763322  2234577889999999988766544

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

Probab=99.15  E-value=9e-09  Score=96.51  Aligned_cols=285  Identities=16%  Similarity=0.113  Sum_probs=161.9

Q ss_pred             cccCcccccchhHHHHHHHhccCCC-CCceEEEEEcCCCccHHHHHHHHHHHhhccCcc--eEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT-MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEG--SYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~-~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..|..+.+|+.+++++...|...-. ..+.-+.|+|++|+|||+.++.+++.+.+....  .++++    +....++.++
T Consensus        14 ~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yIN----c~~~~t~~~i   89 (366)
T COG1474          14 YIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYIN----CLELRTPYQV   89 (366)
T ss_pred             CCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEe----eeeCCCHHHH
Confidence            3444599999999999998863322 334449999999999999999999998776433  47777    5556677888


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhh--CCceEEEEEeCCCChHhH--HHHHccCCCCCC-CcE--EEEEeCChhHH
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRL--TRKKVLIVFDDVNHPRQI--EFLIGNLDWFAS-GSR--ILITARDKQAL  194 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l--~~~~~LlvlDd~~~~~~~--~~l~~~l~~~~~-~~~--iliTsR~~~~~  194 (398)
                      +..++..+......-.........+...+  .++.++||||+++....-  +.+...+..... .++  ++..+-+....
T Consensus        90 ~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~  169 (366)
T COG1474          90 LSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFL  169 (366)
T ss_pred             HHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHH
Confidence            88888877622111011111333344444  357899999999743322  222222222122 232  34444443322


Q ss_pred             HhcC-------CCeeEEcCCCChhhhHHHHHHhhcC---CCCCCcchHHHHHHHHHHcCCChH-HHHHHHHHhc--c--C
Q 015918          195 INCG-------VNKIYQIKELVHVDALKLLNQCAFG---RDHPDASYIELTHEAIKYAQGVPI-ALKILGRFLF--R--K  259 (398)
Q Consensus       195 ~~~~-------~~~~~~l~~L~~~e~~~Ll~~~~~~---~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~l~~~l~--~--~  259 (398)
                      ..+.       ....+..+|-+.+|..+++..++..   ........-++...++...+|-.. ||..+-.+..  +  .
T Consensus       170 ~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~  249 (366)
T COG1474         170 DYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREG  249 (366)
T ss_pred             HHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhC
Confidence            2221       2344789999999999999988732   223333333444444555555443 3333322221  1  0


Q ss_pred             ----CHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCcCCcChHHHHHHH----HhcCc---cccccH
Q 015918          260 ----RKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYL----NACEF---FATSGI  328 (398)
Q Consensus       260 ----~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~~~~~~l~~~~----~~~~~---~~~~~l  328 (398)
                          +.+....+...       --.......+..|+.+.+-++..++....+++.+.+....    .....   .....+
T Consensus       250 ~~~v~~~~v~~a~~~-------~~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~~~ii  322 (366)
T COG1474         250 SRKVSEDHVREAQEE-------IERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRFSDII  322 (366)
T ss_pred             CCCcCHHHHHHHHHH-------hhHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHHHHHH
Confidence                01111111111       1122334457889999888877666664445444443333    22233   334578


Q ss_pred             HHHhhccCeeec
Q 015918          329 EVLVDKSLITIS  340 (398)
Q Consensus       329 ~~L~~~~Ll~~~  340 (398)
                      +.|.-.|++...
T Consensus       323 ~~L~~lgiv~~~  334 (366)
T COG1474         323 SELEGLGIVSAS  334 (366)
T ss_pred             HHHHhcCeEEee
Confidence            889999998854

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

Probab=99.14  E-value=4.6e-10  Score=95.84  Aligned_cols=182  Identities=15%  Similarity=0.142  Sum_probs=103.3

Q ss_pred             cccCcccccchhHHHHHHHhccC--CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG--LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~--~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+|||.+..+..+.-++...  .......+.+|||||+||||||.-+++.....|.   +.+    ........++ 
T Consensus        21 ~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~s----g~~i~k~~dl-   92 (233)
T PF05496_consen   21 KSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITS----GPAIEKAGDL-   92 (233)
T ss_dssp             SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEE----CCC--SCHHH-
T ss_pred             CCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---ecc----chhhhhHHHH-
Confidence            35578999999999987766532  1145678999999999999999999999776642   222    0000001111 


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCC-------------------CCC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWF-------------------ASG  181 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~-------------------~~~  181 (398)
                         ..                  +...++ ++.+|++|+++..  .+-+.|.+.+-..                   .+-
T Consensus        93 ---~~------------------il~~l~-~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   93 ---AA------------------ILTNLK-EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             ---HH------------------HHHT---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             ---HH------------------HHHhcC-CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence               11                  111122 3458899999743  3333343322110                   112


Q ss_pred             cEEEEEeCChhHHHhcC--CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc
Q 015918          182 SRILITARDKQALINCG--VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR  258 (398)
Q Consensus       182 ~~iliTsR~~~~~~~~~--~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~  258 (398)
                      ..|=.|||...+..-+.  ..-..+++..+.+|..+++.+.+..  ...+..++.+.+|++++.|-|.-..-+.+.+++
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~--l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARI--LNIEIDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHC--TT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHH--hCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            23345777654443332  3445689999999999999876532  334456788999999999999988777777665

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.12  E-value=2.4e-08  Score=97.64  Aligned_cols=196  Identities=14%  Similarity=0.075  Sum_probs=113.7

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc--CcceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR--FEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-.+++|.+...+.|..++....  -...++++||+|+||||+|+.+++.+...  .....+.+..+.......-.++. 
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~--l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~-   88 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGR--LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVL-   88 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceE-
Confidence            34568999999999999987632  34566999999999999999999886421  22222222111000000000000 


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hHHH
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QALI  195 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~  195 (398)
                          .+....   ...-..+..+...     ..+++-++|||+++..  ..+..++..+........+|+++... .+..
T Consensus        89 ----el~~~~---~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~  161 (504)
T PRK14963         89 ----EIDAAS---NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPP  161 (504)
T ss_pred             ----Eecccc---cCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCCh
Confidence                000000   0000011111111     1235568999999744  44666666665444555555555433 3222


Q ss_pred             -hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          196 -NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       196 -~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                       ..+.+..+.+.+++.++..+.+...+...+..  ...+.+..+++.++|++.-+....
T Consensus       162 ~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~--i~~~Al~~ia~~s~GdlR~aln~L  218 (504)
T PRK14963        162 TILSRTQHFRFRRLTEEEIAGKLRRLLEAEGRE--AEPEALQLVARLADGAMRDAESLL  218 (504)
T ss_pred             HHhcceEEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence             22456789999999999999998876432222  235778999999999997665433

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.10  E-value=3.7e-09  Score=93.54  Aligned_cols=175  Identities=19%  Similarity=0.197  Sum_probs=106.6

Q ss_pred             Ccccc--cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           48 NKLVG--VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        48 ~~fvG--R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      +.|++  ....++.+.+++..   ...+.+.|+|++|+|||+||+.+++.........+|+.    .+.-.   .....+
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~~---~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~----~~~~~---~~~~~~   84 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAAG---KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP----LAELA---QADPEV   84 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHhc---CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe----HHHHH---HhHHHH
Confidence            35553  44477777777643   45678999999999999999999988765544455655    21100   000111


Q ss_pred             HHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH---h-HHHHHccCCC-CCCCcEEEEEeCChhH-------
Q 015918          126 LSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR---Q-IEFLIGNLDW-FASGSRILITARDKQA-------  193 (398)
Q Consensus       126 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~---~-~~~l~~~l~~-~~~~~~iliTsR~~~~-------  193 (398)
                      +                     ..+.+ .-+|+|||++...   . ...+...+.. ...+..+|+|++....       
T Consensus        85 ~---------------------~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~  142 (226)
T TIGR03420        85 L---------------------EGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLP  142 (226)
T ss_pred             H---------------------hhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccH
Confidence            1                     11122 2389999996432   1 2233322211 1223468888875421       


Q ss_pred             --HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          194 --LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       194 --~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                        .........+.+++++.++...++...+....  ....++....+.+.+.|||..+..+...+
T Consensus       143 ~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~--~~~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       143 DLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG--LQLPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence              11112246789999999999999987552222  22345778889999999999887776554

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=2.3e-08  Score=98.22  Aligned_cols=200  Identities=14%  Similarity=0.104  Sum_probs=114.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcce-EEEeechhhhhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGS-YFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~~~  123 (398)
                      ..-.++||.+..++.|.+++..+.  -...++++|+.|+||||+|+.+++.+...-+.. .-..    ...+.. -..+.
T Consensus        13 qtFddVIGQe~vv~~L~~al~~gR--LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~----~~PCG~-C~sC~   85 (700)
T PRK12323         13 RDFTTLVGQEHVVRALTHALEQQR--LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT----AQPCGQ-CRACT   85 (700)
T ss_pred             CcHHHHcCcHHHHHHHHHHHHhCC--CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC----CCCCcc-cHHHH
Confidence            344679999999999999997642  345678999999999999999999864311000 0000    000000 00000


Q ss_pred             HHHHHHhcC-CCCCCCCccchHHHH---Hh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-
Q 015918          124 ELLSTLLND-GNMNKFPNIGLNFQS---KR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-  191 (398)
Q Consensus       124 ~i~~~l~~~-~~~~~~~~~~~~~l~---~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-  191 (398)
                      .+...-... ...+...+..++.++   ..     ..++.-++|||+++..  .....|+..+..-...+.+|++|.+. 
T Consensus        86 ~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~  165 (700)
T PRK12323         86 EIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQ  165 (700)
T ss_pred             HHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChH
Confidence            000000000 000000001111111   11     1345569999999843  45677777766555566666555543 


Q ss_pred             hHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          192 QALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       192 ~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      .+... .+.+..+.+.+++.++..+.+.+.+....  .....+.+..|++.++|.|.-...+.
T Consensus       166 kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Eg--i~~d~eAL~~IA~~A~Gs~RdALsLL  226 (700)
T PRK12323        166 KIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEG--IAHEVNALRLLAQAAQGSMRDALSLT  226 (700)
T ss_pred             hhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            33322 24567899999999999999887663222  12334667889999999997554443

>PRK06893 DNA replication initiation factor; Validated

Probab=99.10  E-value=4.3e-09  Score=92.99  Aligned_cols=155  Identities=17%  Similarity=0.182  Sum_probs=97.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ..+.+.|+|++|+|||+|+..+++....+...+.|+.    ....   ......                     +...+
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~----~~~~---~~~~~~---------------------~~~~~   89 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP----LSKS---QYFSPA---------------------VLENL   89 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee----HHHh---hhhhHH---------------------HHhhc
Confidence            3467899999999999999999999776666677776    2110   000001                     11111


Q ss_pred             CCceEEEEEeCCCCh---HhHH-HHHccCCCC-CCCcEE-EEEeCCh---------hHHHhcCCCeeEEcCCCChhhhHH
Q 015918          151 TRKKVLIVFDDVNHP---RQIE-FLIGNLDWF-ASGSRI-LITARDK---------QALINCGVNKIYQIKELVHVDALK  215 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~---~~~~-~l~~~l~~~-~~~~~i-liTsR~~---------~~~~~~~~~~~~~l~~L~~~e~~~  215 (398)
                      . +.-+|+|||++..   ..++ .+...+... ..+..+ |+|+...         .....+.....+++++++.++.++
T Consensus        90 ~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~  168 (229)
T PRK06893         90 E-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKII  168 (229)
T ss_pred             c-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHH
Confidence            1 2248999999742   2222 232222211 234445 4555442         233333455688999999999999


Q ss_pred             HHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          216 LLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       216 Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ++.+.+.....  ...++..+.+++++.|....+..+...+
T Consensus       169 iL~~~a~~~~l--~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        169 VLQRNAYQRGI--ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            99988754332  3346889999999999888776665544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.10  E-value=1.1e-08  Score=102.43  Aligned_cols=245  Identities=14%  Similarity=0.119  Sum_probs=128.7

Q ss_pred             cccCcccccchhHHHHHHHhccCCC--CCceEEEEEcCCCccHHHHHHHHHHHhhcc-----Cc--ceEEEeechhhhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-----FE--GSYFAHNVREAEET  115 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-----f~--~~~~~~~~~~~~~~  115 (398)
                      ..|+.+.||++|+++|...|...-.  ....++.|+|++|+|||++++.+++.+...     .+  ..+++.    +...
T Consensus       752 YVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYIN----Cm~L  827 (1164)
T PTZ00112        752 VVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEIN----GMNV  827 (1164)
T ss_pred             cCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEe----CCcc
Confidence            4567899999999999998864211  233567899999999999999999886432     11  234555    3333


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCcc-chHHHHHhh---CCceEEEEEeCCCChH--hHHHHHccCCC-CCCCcEEE--E
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNI-GLNFQSKRL---TRKKVLIVFDDVNHPR--QIEFLIGNLDW-FASGSRIL--I  186 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l---~~~~~LlvlDd~~~~~--~~~~l~~~l~~-~~~~~~il--i  186 (398)
                      .....+...+..++............ ....+...+   .....+||||+++...  .-+.|...+.+ ...+++|+  .
T Consensus       828 stp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIG  907 (1164)
T PTZ00112        828 VHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIA  907 (1164)
T ss_pred             CCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEE
Confidence            45566666666666433221111111 222222222   1234699999997432  11222211111 11233333  3


Q ss_pred             EeCChhHH----HhcC---CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHH---HcCCChH-HHHHHHHH
Q 015918          187 TARDKQAL----INCG---VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIK---YAQGVPI-ALKILGRF  255 (398)
Q Consensus       187 TsR~~~~~----~~~~---~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~---~~~g~Pl-~i~~l~~~  255 (398)
                      ++......    +...   ....+..+|++.++..+++..++...  .....+++.+.+++   ...|... ||.++-.+
T Consensus       908 ISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A--~gVLdDdAIELIArkVAq~SGDARKALDILRrA  985 (1164)
T PTZ00112        908 ISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENC--KEIIDHTAIQLCARKVANVSGDIRKALQICRKA  985 (1164)
T ss_pred             ecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhC--CCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHH
Confidence            33322111    1111   12346779999999999999887432  11223455555554   4445444 44333333


Q ss_pred             hcc--CC---HHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhh
Q 015918          256 LFR--KR---KEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIA  302 (398)
Q Consensus       256 l~~--~~---~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la  302 (398)
                      ...  ..   .+....+...+       ....+...+..||...+-+|..+.
T Consensus       986 gEikegskVT~eHVrkAleei-------E~srI~e~IktLPlHqKLVLlALI 1030 (1164)
T PTZ00112        986 FENKRGQKIVPRDITEATNQL-------FDSPLTNAINYLPWPFKMFLTCLI 1030 (1164)
T ss_pred             HhhcCCCccCHHHHHHHHHHH-------HhhhHHHHHHcCCHHHHHHHHHHH
Confidence            321  11   12222222221       112234456788888887776444

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.08  E-value=5.6e-08  Score=94.01  Aligned_cols=184  Identities=14%  Similarity=0.109  Sum_probs=114.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---------------------Ccce
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---------------------FEGS  103 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---------------------f~~~  103 (398)
                      ..-.++||.+...+.|.+.+..+.  -.+.++++||+|+||||+|+.+++.+.-.                     +..+
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~r--i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNK--IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC--CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            344679999999999998887632  34579999999999999999999864211                     1122


Q ss_pred             EEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCC
Q 015918          104 YFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASG  181 (398)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~  181 (398)
                      +.+.    .+......++ ..+.......                -..++.-++|||+++..  .....|+..+....+.
T Consensus        88 ~eid----aas~~~vddI-R~Iie~~~~~----------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~  146 (491)
T PRK14964         88 IEID----AASNTSVDDI-KVILENSCYL----------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPH  146 (491)
T ss_pred             EEEe----cccCCCHHHH-HHHHHHHHhc----------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCC
Confidence            2222    1111111111 1111111000                01245568999999743  4466666666555566


Q ss_pred             cEEEEEeCCh-hHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          182 SRILITARDK-QALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       182 ~~iliTsR~~-~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      ..+|++|.+. .+.. ..+.+..+.+.+++.++..+.+...+...+.  ...++.+..+++.++|.+..+....
T Consensus       147 v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi--~i~~eAL~lIa~~s~GslR~alslL  218 (491)
T PRK14964        147 VKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI--EHDEESLKLIAENSSGSMRNALFLL  218 (491)
T ss_pred             eEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            6666665433 3322 2346788999999999999999887633222  2345778899999999987554443

>PLN03025 replication factor C subunit; Provisional

Probab=99.08  E-value=1.7e-08  Score=93.94  Aligned_cols=188  Identities=12%  Similarity=0.111  Sum_probs=110.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEeechhhhhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      ..-.+++|.+..++.|..++..   +..+.+.++||+|+||||+|..+++.+... +... ++. +. .+..... +.+.
T Consensus        10 ~~l~~~~g~~~~~~~L~~~~~~---~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~-~~e-ln-~sd~~~~-~~vr   82 (319)
T PLN03025         10 TKLDDIVGNEDAVSRLQVIARD---GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEA-VLE-LN-ASDDRGI-DVVR   82 (319)
T ss_pred             CCHHHhcCcHHHHHHHHHHHhc---CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccc-eee-ec-ccccccH-HHHH
Confidence            3445789999999999888775   344568899999999999999999986432 2211 111 00 1111111 1222


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCCh-hHHH-hcCC
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDK-QALI-NCGV  199 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~-~~~~-~~~~  199 (398)
                      +....+......             ...++.-++|||+++...  ....+...+......+++++++... .+.+ ..+.
T Consensus        83 ~~i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SR  149 (319)
T PLN03025         83 NKIKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSR  149 (319)
T ss_pred             HHHHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHh
Confidence            222222111000             002346699999997532  2333333332223455666655432 2221 2234


Q ss_pred             CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          200 NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       200 ~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      +..+++++++.++..+.+...+...+.  ...++....+++.++|....+.....
T Consensus       150 c~~i~f~~l~~~~l~~~L~~i~~~egi--~i~~~~l~~i~~~~~gDlR~aln~Lq  202 (319)
T PLN03025        150 CAIVRFSRLSDQEILGRLMKVVEAEKV--PYVPEGLEAIIFTADGDMRQALNNLQ  202 (319)
T ss_pred             hhcccCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            567899999999999999887633222  22356789999999998876654444

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

Probab=99.07  E-value=7.2e-09  Score=90.71  Aligned_cols=191  Identities=15%  Similarity=0.160  Sum_probs=108.8

Q ss_pred             cccccCcccccchhHH--HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCH
Q 015918           43 TFETENKLVGVDSRIE--EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKL  118 (398)
Q Consensus        43 ~~~~~~~fvGR~~el~--~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~  118 (398)
                      .++-+..++|-..++.  ...+...... .....+.|+|++|+|||.|+..+++.+.+..+  .++|++          .
T Consensus         4 ~~tFdnfv~g~~N~~a~~~~~~ia~~~~-~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~----------~   72 (219)
T PF00308_consen    4 KYTFDNFVVGESNELAYAAAKAIAENPG-ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS----------A   72 (219)
T ss_dssp             T-SCCCS--TTTTHHHHHHHHHHHHSTT-TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE----------H
T ss_pred             CCccccCCcCCcHHHHHHHHHHHHhcCC-CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec----------H
Confidence            3345556678655533  2333333332 45567899999999999999999998765432  355554          1


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH---hH-HHHHccCCC-CCCCcEEEEEeCChh-
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR---QI-EFLIGNLDW-FASGSRILITARDKQ-  192 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~---~~-~~l~~~l~~-~~~~~~iliTsR~~~-  192 (398)
                      .++...+...+...         ....+...+..-. +|+|||++...   .+ +.+...+.. ...+.++|+|+...+ 
T Consensus        73 ~~f~~~~~~~~~~~---------~~~~~~~~~~~~D-lL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~  142 (219)
T PF00308_consen   73 EEFIREFADALRDG---------EIEEFKDRLRSAD-LLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPS  142 (219)
T ss_dssp             HHHHHHHHHHHHTT---------SHHHHHHHHCTSS-EEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TT
T ss_pred             HHHHHHHHHHHHcc---------cchhhhhhhhcCC-EEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCc
Confidence            23333333333221         2233444444333 88999996432   12 223322221 134667999985442 


Q ss_pred             --------HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          193 --------ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       193 --------~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                              ....+..+..++|.+.+.++-.+++.+.+......  ..+++++.+++.+.++...+..+...+
T Consensus       143 ~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  143 ELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGIE--LPEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             TTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             cccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC--CcHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence                    12223467889999999999999999887443333  446888999999988888776655444

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.06  E-value=1.1e-07  Score=90.24  Aligned_cols=184  Identities=15%  Similarity=0.095  Sum_probs=113.4

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----c----------------ceE
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----E----------------GSY  104 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~----------------~~~  104 (398)
                      .-..++|.+..++.|.+++..+  .-.+.++++||+|+||||+|+.+++.+...-     +                ...
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~--~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~   89 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNG--RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVI   89 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEE
Confidence            3456899999999999998753  2345788999999999999999998864321     0                111


Q ss_pred             EEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCc
Q 015918          105 FAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGS  182 (398)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~  182 (398)
                      ++.    ...... .+...++...+...                -..+.+-++|||+++..  .....+...+......+
T Consensus        90 ~~~----~~~~~~-~~~~~~l~~~~~~~----------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~  148 (355)
T TIGR02397        90 EID----AASNNG-VDDIREILDNVKYA----------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHV  148 (355)
T ss_pred             Eee----ccccCC-HHHHHHHHHHHhcC----------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccce
Confidence            111    000001 01111121111100                01234458999999744  44566666665445566


Q ss_pred             EEEEEeCChh-HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          183 RILITARDKQ-ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       183 ~iliTsR~~~-~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      .+|+++.+.. +.. ..+....+++++++.++..+++...+...+..  ..++.+..+++.++|.|..+.....
T Consensus       149 ~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~--i~~~a~~~l~~~~~g~~~~a~~~le  220 (355)
T TIGR02397       149 VFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK--IEDEALELIARAADGSLRDALSLLD  220 (355)
T ss_pred             eEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCChHHHHHHHH
Confidence            6666665543 222 22455788999999999999998766332222  2346788999999999987665543

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.05  E-value=3.8e-08  Score=96.47  Aligned_cols=183  Identities=14%  Similarity=0.114  Sum_probs=113.1

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---------------------CcceE
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---------------------FEGSY  104 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---------------------f~~~~  104 (398)
                      .-.++||-+..++.|.+++....  -...++++||+|+||||+|+.+++.+...                     ++.++
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~--l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~   91 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQY--LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLF   91 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC--CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEE
Confidence            44679999999999999997632  34567899999999999999999885321                     11111


Q ss_pred             EEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCc
Q 015918          105 FAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGS  182 (398)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~  182 (398)
                      .+.    ........++ .++...+...                -..++.-++|||+++.  ......++..+...+..+
T Consensus        92 eid----aas~~~v~~i-R~l~~~~~~~----------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~  150 (509)
T PRK14958         92 EVD----AASRTKVEDT-RELLDNIPYA----------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHV  150 (509)
T ss_pred             EEc----ccccCCHHHH-HHHHHHHhhc----------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCe
Confidence            111    1111111111 1111111100                0124556899999984  345666666665545566


Q ss_pred             EEEEEeCCh-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          183 RILITARDK-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       183 ~iliTsR~~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      .+|++|.+. .+. ...+.+..+++.+++.++..+.+...+...+.  ....+.+..+++.++|.+.-+..+.
T Consensus       151 ~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi--~~~~~al~~ia~~s~GslR~al~lL  221 (509)
T PRK14958        151 KFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV--EFENAALDLLARAANGSVRDALSLL  221 (509)
T ss_pred             EEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            666655443 222 22345677899999999999887776633222  2335668889999999987665544

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.05  E-value=5.9e-08  Score=94.17  Aligned_cols=186  Identities=16%  Similarity=0.115  Sum_probs=109.9

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cc----------------eE
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EG----------------SY  104 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~----------------~~  104 (398)
                      .-.+++|.+...+.|...+..+  .-++.++++||+|+||||+|+.+++.+...-     +|                ..
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~--~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKN--SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            4467999999988888888753  2335688999999999999999998854321     00                11


Q ss_pred             EEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCc
Q 015918          105 FAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGS  182 (398)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~  182 (398)
                      .+.    .+.......+ ..+......                .-..+++-++|||+++..  .....++..+...+..+
T Consensus        90 el~----aa~~~gid~i-R~i~~~~~~----------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~v  148 (472)
T PRK14962         90 ELD----AASNRGIDEI-RKIRDAVGY----------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHV  148 (472)
T ss_pred             EEe----CcccCCHHHH-HHHHHHHhh----------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcE
Confidence            111    0000011111 111110000                011245669999999754  34555655554434445


Q ss_pred             EEEEEeCCh-hHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHHHHHHh
Q 015918          183 RILITARDK-QALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKILGRFL  256 (398)
Q Consensus       183 ~iliTsR~~-~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~l~~~l  256 (398)
                      .+|++|.++ .+.. ..+.+..+.+.+++.++....+...+....  ....++.+..+++.++|. +.++..+-.+.
T Consensus       149 v~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~eg--i~i~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        149 VFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEG--IEIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            555444432 2222 234667899999999999999988763222  123457788999988765 55666665543

>PRK04195 replication factor C large subunit; Provisional

Probab=99.04  E-value=2.3e-08  Score=98.27  Aligned_cols=218  Identities=17%  Similarity=0.151  Sum_probs=125.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCC-CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT-MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~-~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      ..-.+++|++..++.|.+|+..... ...+.++|+||+|+||||+|..+++.+.  ++. +.+.    .+.... .+.+.
T Consensus        11 ~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~~-ieln----asd~r~-~~~i~   82 (482)
T PRK04195         11 KTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WEV-IELN----ASDQRT-ADVIE   82 (482)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CCE-EEEc----cccccc-HHHHH
Confidence            3456799999999999999874321 2368899999999999999999999863  222 2222    111111 12222


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH------hHHHHHccCCCCCCCcEEEEEeCCh-hHH--
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR------QIEFLIGNLDWFASGSRILITARDK-QAL--  194 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~------~~~~l~~~l~~~~~~~~iliTsR~~-~~~--  194 (398)
                      .+.........              ....++-+||||+++...      ....+...+.  ...+.+|+++.+. ...  
T Consensus        83 ~~i~~~~~~~s--------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k  146 (482)
T PRK04195         83 RVAGEAATSGS--------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLR  146 (482)
T ss_pred             HHHHHhhccCc--------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchh
Confidence            22222211111              011356799999997532      2444443333  2233455555332 111  


Q ss_pred             HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc-CCHHHHHHHHHHhcc
Q 015918          195 INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR-KRKEVWENAISKLEM  273 (398)
Q Consensus       195 ~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~  273 (398)
                      .....+..+.+++++..+....+...+......  ...+....+++.++|....+......+.. ........+......
T Consensus       147 ~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~--i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~~  224 (482)
T PRK04195        147 ELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE--CDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGRR  224 (482)
T ss_pred             hHhccceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhcC
Confidence            222456789999999999999998876332222  23577999999999988877654444433 211111111111223


Q ss_pred             CChhhHHHHHHHhHh
Q 015918          274 VPQMEIQEVLKISYD  288 (398)
Q Consensus       274 ~~~~~v~~~l~~~~~  288 (398)
                      .....++.++...+.
T Consensus       225 d~~~~if~~l~~i~~  239 (482)
T PRK04195        225 DREESIFDALDAVFK  239 (482)
T ss_pred             CCCCCHHHHHHHHHC
Confidence            334556666655554

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.04  E-value=2.1e-08  Score=99.53  Aligned_cols=197  Identities=14%  Similarity=0.076  Sum_probs=112.8

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.+++|.+..++.|..++..+  .-...++++|++|+||||+|+.+++.+...... .+..+.    .+.....+...
T Consensus        13 ~tFddIIGQe~vv~~L~~ai~~~--rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~-~~~pCg----~C~sCr~i~~g   85 (709)
T PRK08691         13 KTFADLVGQEHVVKALQNALDEG--RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQ-HGEPCG----VCQSCTQIDAG   85 (709)
T ss_pred             CCHHHHcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCC-CCCCCc----ccHHHHHHhcc
Confidence            34467999999999999999863  234678999999999999999999875332110 000000    00000000000


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHh--------hCCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCCh-hH
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKR--------LTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDK-QA  193 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~--------l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~-~~  193 (398)
                      -..++..-   +......++.++..        ..++.-++|||+++...  ....|+..+......+.+|++|.+. .+
T Consensus        86 ~~~DvlEi---daAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL  162 (709)
T PRK08691         86 RYVDLLEI---DAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKV  162 (709)
T ss_pred             CccceEEE---eccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCcccc
Confidence            00000000   00000011111111        12455699999997543  3455555554434566666666543 22


Q ss_pred             H-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          194 L-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       194 ~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      . ...+.+..+.+.+++.++..+.+...+...+.  ....+.+..|++.++|.+.-+..+.
T Consensus       163 ~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi--~id~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        163 PVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI--AYEPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             chHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC--CcCHHHHHHHHHHhCCCHHHHHHHH
Confidence            1 11234567889999999999999887743222  2345678999999999997666554

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.03  E-value=8.5e-08  Score=95.35  Aligned_cols=196  Identities=13%  Similarity=0.118  Sum_probs=113.6

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC----cceEEEeechhhhhcCCHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF----EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f----~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .-.++||-+..++.|.+++..+.  -...++++|+.|+||||+|+.+++.+...-    .......    +..+    ..
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~r--l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~p----Cg~C----~~   83 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQR--LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATP----CGVC----QA   83 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCC----CCcc----HH
Confidence            44678999999999999987642  346678999999999999999998854211    0000000    0000    01


Q ss_pred             HHHHHHHHhcC-CCCCCCCccchHHHHHhh--------CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          122 RKELLSTLLND-GNMNKFPNIGLNFQSKRL--------TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       122 ~~~i~~~l~~~-~~~~~~~~~~~~~l~~~l--------~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      +..+...-... ...+...+..++.++..+        .++.-++|||+++.  ......++..+......+.+|++|.+
T Consensus        84 C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd  163 (618)
T PRK14951         84 CRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTD  163 (618)
T ss_pred             HHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECC
Confidence            11110000000 000000001111111111        23445899999984  34566677666554556566655543


Q ss_pred             h-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          191 K-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       191 ~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      . .+. ...+.+..+.+.+++.++..+.+...+...+.  ....+.+..+++.++|.+..+..+.
T Consensus       164 ~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi--~ie~~AL~~La~~s~GslR~al~lL  226 (618)
T PRK14951        164 PQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV--PAEPQALRLLARAARGSMRDALSLT  226 (618)
T ss_pred             chhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2 222 23356788999999999999999877633222  2335678899999999887665553

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

Probab=99.03  E-value=4e-10  Score=96.33  Aligned_cols=52  Identities=27%  Similarity=0.414  Sum_probs=36.7

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .|+||+.+++++.+.+........+.++|+|++|+|||+|++++.+.+....
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~   52 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERG   52 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            4899999999999999633325679999999999999999999999987773

>PRK08727 hypothetical protein; Validated

Probab=99.03  E-value=1.9e-08  Score=89.14  Aligned_cols=173  Identities=17%  Similarity=0.102  Sum_probs=102.5

Q ss_pred             Ccccccc-hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHH
Q 015918           48 NKLVGVD-SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELL  126 (398)
Q Consensus        48 ~~fvGR~-~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (398)
                      +.|++.. ..+..+.....+   .....+.|+|++|+|||.|+..+++...++...+.|+.    ...   ......+.+
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~---~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~----~~~---~~~~~~~~~   88 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAG---QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP----LQA---AAGRLRDAL   88 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhc---cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe----HHH---hhhhHHHHH
Confidence            3455444 344444443322   33456999999999999999999998777666667765    211   000011111


Q ss_pred             HHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----HhHHHHHccCCC-CCCCcEEEEEeCChhH--------
Q 015918          127 STLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----RQIEFLIGNLDW-FASGSRILITARDKQA--------  193 (398)
Q Consensus       127 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----~~~~~l~~~l~~-~~~~~~iliTsR~~~~--------  193 (398)
                                           ..+. ..-+|||||++..    .....+...+.. ...+..+|+|++....        
T Consensus        89 ---------------------~~l~-~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~d  146 (233)
T PRK08727         89 ---------------------EALE-GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPD  146 (233)
T ss_pred             ---------------------HHHh-cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHH
Confidence                                 1111 2238999999632    111223322221 1235668998875421        


Q ss_pred             -HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          194 -LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       194 -~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                       ...+.....+++++++.++..+++.+++.....  ...++....+++.+.|....+..+..
T Consensus       147 L~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l--~l~~e~~~~La~~~~rd~r~~l~~L~  206 (233)
T PRK08727        147 LRSRLAQCIRIGLPVLDDVARAAVLRERAQRRGL--ALDEAAIDWLLTHGERELAGLVALLD  206 (233)
T ss_pred             HHHHHhcCceEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence             111224578999999999999999986643322  23457788899999877776644433

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.02  E-value=9.7e-08  Score=93.11  Aligned_cols=196  Identities=13%  Similarity=0.079  Sum_probs=112.7

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcc---eEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEG---SYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..-.+++|.+..++.|...+..+  .-.+.++++||+|+||||+|+.+++.+......   ..+..    +..+.    .
T Consensus        18 ~~f~dliGq~~vv~~L~~ai~~~--ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~----C~~C~----~   87 (507)
T PRK06645         18 SNFAELQGQEVLVKVLSYTILND--RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKT----CEQCT----N   87 (507)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCC----CCCCh----H
Confidence            34457899999999999877653  234678999999999999999999886432100   00000    00000    0


Q ss_pred             HHHHHHHHhcCC-CCCCCCccchHHHHH---h-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEe-C
Q 015918          122 RKELLSTLLNDG-NMNKFPNIGLNFQSK---R-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITA-R  189 (398)
Q Consensus       122 ~~~i~~~l~~~~-~~~~~~~~~~~~l~~---~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTs-R  189 (398)
                      +..+.......- ..+......++.+..   .     +.+++-++|||+++..  ..+..|+..+....+.+.+|++| .
T Consensus        88 C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte  167 (507)
T PRK06645         88 CISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTE  167 (507)
T ss_pred             HHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCC
Confidence            000000000000 000000001111111   1     2345668999999853  44666766665444555555544 3


Q ss_pred             ChhHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          190 DKQALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       190 ~~~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      ...+... .+.+..+++.+++.++..+.+...+...+  .....+.+..+++.++|.+.-+...
T Consensus       168 ~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~eg--i~ie~eAL~~Ia~~s~GslR~al~~  229 (507)
T PRK06645        168 VQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQEN--LKTDIEALRIIAYKSEGSARDAVSI  229 (507)
T ss_pred             hHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3333332 24567899999999999999988774322  2234567888999999988765443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.02  E-value=5.6e-08  Score=91.37  Aligned_cols=200  Identities=13%  Similarity=0.050  Sum_probs=114.5

Q ss_pred             ccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHHH
Q 015918           44 FETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        44 ~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~  121 (398)
                      |.....++|.+...+.|.+.+..+  .-....+++||.|+||+|+|..+++.+-.+-+  .............+.. -..
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~--rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~-c~~   91 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSG--RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPD-HPV   91 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCC-ChH
Confidence            345678999999999999998763  23456889999999999999999998532211  0000000000000000 011


Q ss_pred             HHHHHHHHhcC----C-C-CCC----CCccchHHHH---Hhh-----CCceEEEEEeCCC--ChHhHHHHHccCCCCCCC
Q 015918          122 RKELLSTLLND----G-N-MNK----FPNIGLNFQS---KRL-----TRKKVLIVFDDVN--HPRQIEFLIGNLDWFASG  181 (398)
Q Consensus       122 ~~~i~~~l~~~----~-~-~~~----~~~~~~~~l~---~~l-----~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~  181 (398)
                      +..+.......    . . .+.    .....++.++   ..+     .+.+.++|||+++  +......++..+.....+
T Consensus        92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~  171 (365)
T PRK07471         92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR  171 (365)
T ss_pred             HHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            11111100000    0 0 000    0112223332   222     2466799999997  445566666666554456


Q ss_pred             cEEEEEeCCh-hHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          182 SRILITARDK-QALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       182 ~~iliTsR~~-~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      ..+|++|... .+.+. .+.+..+.+.+++.+++.+++......   ..   .+....+++.++|+|.....+
T Consensus       172 ~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~---~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        172 SLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP---DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             eEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            6666666554 33222 346788999999999999999876411   11   122367899999999866444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=9.1e-08  Score=93.91  Aligned_cols=179  Identities=13%  Similarity=0.085  Sum_probs=109.7

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC---------------------cceE
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF---------------------EGSY  104 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f---------------------~~~~  104 (398)
                      .-.+++|.+..++.|...+..+  .....++++||+|+||||+|+.+++.+....                     ...+
T Consensus        14 ~f~diiGq~~~v~~L~~~i~~~--rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALETQ--KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            3457899999999999998753  2345678999999999999999998764321                     1111


Q ss_pred             EEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCc
Q 015918          105 FAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGS  182 (398)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~  182 (398)
                      ++.    ........+ ...+...+..                .-..+++-++|||+++.  ......|+..+...+..+
T Consensus        92 eid----aas~~gvd~-ir~ii~~~~~----------------~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v  150 (546)
T PRK14957         92 EID----AASRTGVEE-TKEILDNIQY----------------MPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYV  150 (546)
T ss_pred             Eee----cccccCHHH-HHHHHHHHHh----------------hhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCc
Confidence            111    000001110 0111111100                01234566999999974  344666666665544566


Q ss_pred             EEEEEeCCh-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          183 RILITARDK-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       183 ~iliTsR~~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      .+|++|.+. .+. ...+.+..+++.+++.++..+.+...+...+  ....++.+..+++.++|.+.-+
T Consensus       151 ~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg--i~~e~~Al~~Ia~~s~GdlR~a  217 (546)
T PRK14957        151 KFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN--INSDEQSLEYIAYHAKGSLRDA  217 (546)
T ss_pred             eEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHH
Confidence            555544333 333 2234678899999999999988887653222  2234566889999999988643

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.00  E-value=2e-08  Score=88.89  Aligned_cols=172  Identities=18%  Similarity=0.204  Sum_probs=101.6

Q ss_pred             Cccc-ccchhH-HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           48 NKLV-GVDSRI-EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        48 ~~fv-GR~~el-~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      ++|+ |+.++. ..+.++... . ...+.++|+|++|+|||+||..+++.....-....++.    ...   ..   .. 
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~-~-~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~----~~~---~~---~~-   84 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAG-P-VADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD----AAS---PL---LA-   84 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhc-c-CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe----hHH---hH---HH-
Confidence            3444 554444 334444432 1 34568899999999999999999998655444455555    111   00   00 


Q ss_pred             HHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCC-CCC-cEEEEEeCChhHHH------
Q 015918          126 LSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWF-ASG-SRILITARDKQALI------  195 (398)
Q Consensus       126 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~-~~~-~~iliTsR~~~~~~------  195 (398)
                         +                  .. ....-+|+|||++..  .....+...+... ..+ ..+++|++..+...      
T Consensus        85 ---~------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L  142 (227)
T PRK08903         85 ---F------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDL  142 (227)
T ss_pred             ---H------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHH
Confidence               0                  00 112347999999643  2223333333211 123 34666666432111      


Q ss_pred             --hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          196 --NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       196 --~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                        .......+.+++++.++...++...+....  ....++..+.+++.+.||+..+..+...+
T Consensus       143 ~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~--v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        143 RTRLGWGLVYELKPLSDADKIAALKAAAAERG--LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence              222347899999999888888776542222  22345789999999999999988777765

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.99  E-value=3.2e-08  Score=87.74  Aligned_cols=177  Identities=15%  Similarity=0.147  Sum_probs=105.4

Q ss_pred             ccCcccccch-hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           46 TENKLVGVDS-RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        46 ~~~~fvGR~~-el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      -+..++|-.. .+..+.++...   ...+.+.|+||+|+|||+|+..+++........+.|+.    ......   ...+
T Consensus        21 fd~f~~~~n~~a~~~l~~~~~~---~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~----~~~~~~---~~~~   90 (235)
T PRK08084         21 FASFYPGDNDSLLAALQNALRQ---EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP----LDKRAW---FVPE   90 (235)
T ss_pred             ccccccCccHHHHHHHHHHHhC---CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE----HHHHhh---hhHH
Confidence            3344446333 34444444433   34468999999999999999999998766555566665    211000   0001


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh---HhHH-HHHccCCCC--CCCcEEEEEeCChhH-----
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP---RQIE-FLIGNLDWF--ASGSRILITARDKQA-----  193 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~---~~~~-~l~~~l~~~--~~~~~iliTsR~~~~-----  193 (398)
                      +                     ...+.. --+|+|||++..   ..++ .+...+...  ....++|+||+.++.     
T Consensus        91 ~---------------------~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~  148 (235)
T PRK08084         91 V---------------------LEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLG  148 (235)
T ss_pred             H---------------------HHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcc
Confidence            1                     011111 137999999642   2222 222222211  223478888875522     


Q ss_pred             ----HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          194 ----LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       194 ----~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                          ...+.....+++++++.++-.+++.+.+....  ....++..+.+++++.|....+..+...+
T Consensus       149 ~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~--~~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        149 LPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRG--FELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             cHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence                22233557899999999999999987663322  23446889999999998888776655544

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

Probab=98.99  E-value=2.6e-09  Score=85.79  Aligned_cols=114  Identities=20%  Similarity=0.270  Sum_probs=74.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc-----CcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR-----FEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNF  145 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  145 (398)
                      +.+.++|+|++|+|||+++..+++.+...     -..++|+.    .........+...++..+..........+...+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~   78 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN----CPSSRTPRDFAQEILEALGLPLKSRQTSDELRSL   78 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE----HHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE----eCCCCCHHHHHHHHHHHhCccccccCCHHHHHHH
Confidence            45789999999999999999999986543     34466776    5555688999999999998776542222334456


Q ss_pred             HHHhhCCc-eEEEEEeCCCCh-H--hHHHHHccCCCCCCCcEEEEEeCC
Q 015918          146 QSKRLTRK-KVLIVFDDVNHP-R--QIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       146 l~~~l~~~-~~LlvlDd~~~~-~--~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      +.+.+... ..+||||+++.. .  .+..+.....  ..+.++|++...
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            66655544 469999999765 2  2344433333  667788887765

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.99  E-value=7.7e-08  Score=95.86  Aligned_cols=196  Identities=15%  Similarity=0.103  Sum_probs=114.2

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.++||.+..++.|...+..+.  -...++++|++|+||||+|+.+++.+......    .    ..++... ..+..
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~r--l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~----~----~~pCg~C-~~C~~   81 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGR--LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI----T----ATPCGEC-DNCRE   81 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC----C----CCCCCCC-HHHHH
Confidence            345679999999999999997632  33556899999999999999999885432100    0    0000000 11111


Q ss_pred             HHHHHhcC-CCCCCCCccchH---HHHHh-----hCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-h
Q 015918          125 LLSTLLND-GNMNKFPNIGLN---FQSKR-----LTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-Q  192 (398)
Q Consensus       125 i~~~l~~~-~~~~~~~~~~~~---~l~~~-----l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~  192 (398)
                      +...-... ...+......++   .+...     ..++.-++|||+++.  ......|+..+-.-...+++|++|.+. .
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k  161 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence            11000000 000000000111   11111     234666999999974  445666766665445566565555443 3


Q ss_pred             HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          193 ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       193 ~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +.. ..+.+..+.+.+++.++..+.+...+....  .....+....+++.++|.+.-...+.
T Consensus       162 Ll~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~--i~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        162 LPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQ--IPFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             cchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            332 234578899999999999999987662222  22335668889999999988665554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.98  E-value=1.2e-07  Score=90.89  Aligned_cols=200  Identities=13%  Similarity=0.021  Sum_probs=114.9

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.+++|.+..++.|..++..+.  -...++++||+|+||||+|+.+++.+........-.+     ..+.....+...
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~r--i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pC-----g~C~sC~~i~~g   87 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGK--IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPC-----NECTSCLEITKG   87 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCcccc-----CCCcHHHHHHcc
Confidence            344679999999999999987632  2346899999999999999999998643311000000     000011111100


Q ss_pred             HHHHHhcCCCCCCC-Ccc---chHHHHH-hhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCC-hhHHH-
Q 015918          125 LLSTLLNDGNMNKF-PNI---GLNFQSK-RLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARD-KQALI-  195 (398)
Q Consensus       125 i~~~l~~~~~~~~~-~~~---~~~~l~~-~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~-~~~~~-  195 (398)
                      ...++..-...... .+.   ..+.+.. -..++.-++|||+++.  ......|+..+......+.+|++|.+ ..+.. 
T Consensus        88 ~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~T  167 (484)
T PRK14956         88 ISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPET  167 (484)
T ss_pred             CCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHH
Confidence            00000000000000 000   1111111 1234567999999984  44577777666544445555555544 33322 


Q ss_pred             hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          196 NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       196 ~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      ..+.+..+.+.+++.++..+.+...+...+  ....++.+..|++.++|.+.-.-.+.
T Consensus       168 I~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg--i~~e~eAL~~Ia~~S~Gd~RdAL~lL  223 (484)
T PRK14956        168 ILSRCQDFIFKKVPLSVLQDYSEKLCKIEN--VQYDQEGLFWIAKKGDGSVRDMLSFM  223 (484)
T ss_pred             HHhhhheeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCChHHHHHHHH
Confidence            234567899999999999999988763222  23346779999999999997554443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.97  E-value=5.6e-08  Score=83.34  Aligned_cols=159  Identities=16%  Similarity=0.124  Sum_probs=94.7

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---------------------CcceEEEeechhhhhcCC
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---------------------FEGSYFAHNVREAEETGK  117 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---------------------f~~~~~~~~~~~~~~~~~  117 (398)
                      .|.+.+..+  .-...++++|++|+|||++|+.+.+.+...                     ++...++...   .....
T Consensus         3 ~l~~~i~~~--~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~---~~~~~   77 (188)
T TIGR00678         3 QLKRALEKG--RLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPE---GQSIK   77 (188)
T ss_pred             HHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccc---cCcCC
Confidence            344555432  234678999999999999999999886432                     1112222100   00011


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hHH
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QAL  194 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~~  194 (398)
                      . +.+.++...+...                -..+.+-++||||++..  .....++..+...++...+|+++++. .+.
T Consensus        78 ~-~~i~~i~~~~~~~----------------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~  140 (188)
T TIGR00678        78 V-DQVRELVEFLSRT----------------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLL  140 (188)
T ss_pred             H-HHHHHHHHHHccC----------------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCh
Confidence            1 1111111111100                01245668999999743  34566666665545566677766544 222


Q ss_pred             H-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH
Q 015918          195 I-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       195 ~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                      . ..+....+.+.+++.++..+.+.+.  +      ..++.+..+++.++|+|.
T Consensus       141 ~~i~sr~~~~~~~~~~~~~~~~~l~~~--g------i~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       141 PTIRSRCQVLPFPPLSEEALLQWLIRQ--G------ISEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHHHhhcEEeeCCCCCHHHHHHHHHHc--C------CCHHHHHHHHHHcCCCcc
Confidence            2 1235678999999999999999876  2      124669999999999986

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.

>PTZ00202 tuzin; Provisional

Probab=98.97  E-value=1.2e-07  Score=88.45  Aligned_cols=166  Identities=11%  Similarity=0.023  Sum_probs=101.0

Q ss_pred             ccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           44 FETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        44 ~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      |++...|+||+.|+..|...|.......+++++|+|++|+|||||++.+.....    ...++.+.      ....+++.
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNp------rg~eElLr  327 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDV------RGTEDTLR  327 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECC------CCHHHHHH
Confidence            477889999999999999999754434557999999999999999999997654    23444422      25689999


Q ss_pred             HHHHHHhcCCCCCCCCcc---chHHHHHh-hC-CceEEEEEeCCC--ChH-hHHHHHccCCCCCCCcEEEEEeCChhHHH
Q 015918          124 ELLSTLLNDGNMNKFPNI---GLNFQSKR-LT-RKKVLIVFDDVN--HPR-QIEFLIGNLDWFASGSRILITARDKQALI  195 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~---~~~~l~~~-l~-~~~~LlvlDd~~--~~~-~~~~l~~~l~~~~~~~~iliTsR~~~~~~  195 (398)
                      .++.+++..... ...+.   ..+.+... .. +++.+|||-==+  +.. .+.+... +...-.-|+|++----+....
T Consensus       328 ~LL~ALGV~p~~-~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v~-la~drr~ch~v~evpleslt~  405 (550)
T PTZ00202        328 SVVKALGVPNVE-ACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVVA-LACDRRLCHVVIEVPLESLTI  405 (550)
T ss_pred             HHHHHcCCCCcc-cHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHHH-HHccchhheeeeeehHhhcch
Confidence            999999863221 11111   22222221 12 566666654332  222 1121111 111134566766433221111


Q ss_pred             ---hcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          196 ---NCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       196 ---~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                         .+.....+.+++|+.+++-.+.+...
T Consensus       406 ~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        406 ANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hcccCccceeEecCCCCHHHHHHHHhhcc
Confidence               11244678899999999998886554

>PF13173 AAA_14: AAA domain

Probab=98.97  E-value=4.2e-09  Score=84.23  Aligned_cols=120  Identities=15%  Similarity=0.091  Sum_probs=76.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      .++++|.|+.|+|||||++++++... ....++|+..    ...........             +    ..+.+.+...
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~----~~~~~~~~~~~-------------~----~~~~~~~~~~   59 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINF----DDPRDRRLADP-------------D----LLEYFLELIK   59 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeecc----CCHHHHHHhhh-------------h----hHHHHHHhhc
Confidence            36899999999999999999998876 2333556541    11000000000             0    1122222233


Q ss_pred             CceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHhc------CCCeeEEcCCCChhhh
Q 015918          152 RKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINC------GVNKIYQIKELVHVDA  213 (398)
Q Consensus       152 ~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~------~~~~~~~l~~L~~~e~  213 (398)
                      .++.+|+||+++....|......+....+..++++|+.........      +....++|.||+-.|.
T Consensus        60 ~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   60 PGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            4678999999988777777766666545678999999876544321      2345688999997763

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

Probab=98.95  E-value=3.7e-08  Score=86.15  Aligned_cols=263  Identities=15%  Similarity=0.131  Sum_probs=152.6

Q ss_pred             cccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+|+|.++..+.|.=++....  +...-.++++||||.||||||.-+++....++.    +.      + ...-+-.
T Consensus        23 ~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k----~t------s-Gp~leK~   91 (332)
T COG2255          23 KTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLK----IT------S-GPALEKP   91 (332)
T ss_pred             ccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeE----ec------c-cccccCh
Confidence            445689999999888887775322  155678999999999999999999998765532    11      0 1111111


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-hHHHHH-ccCCC-------------------CCCC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-QIEFLI-GNLDW-------------------FASG  181 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-~~~~l~-~~l~~-------------------~~~~  181 (398)
                      .+++.-+..                  +.. .=++++|+++... ..++++ +.+..                   ..+.
T Consensus        92 gDlaaiLt~------------------Le~-~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppF  152 (332)
T COG2255          92 GDLAAILTN------------------LEE-GDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPF  152 (332)
T ss_pred             hhHHHHHhc------------------CCc-CCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCe
Confidence            112222211                  222 2277889997432 122221 11110                   0222


Q ss_pred             cEEEEEeCChhHHHhc--CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccC
Q 015918          182 SRILITARDKQALINC--GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRK  259 (398)
Q Consensus       182 ~~iliTsR~~~~~~~~--~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~  259 (398)
                      ..|=.|||...+..-+  ......+++..+.+|..+++.+.+.-  ......++.+.++++++.|-|.-..-+.+.+++.
T Consensus       153 TLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~--l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDf  230 (332)
T COG2255         153 TLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI--LGIEIDEEAALEIARRSRGTPRIANRLLRRVRDF  230 (332)
T ss_pred             eEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH--hCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            2344688865433222  35567889999999999999887622  2223345779999999999999777776666542


Q ss_pred             CHHHHHHHHHHhccCChh---hHHHHHHHhHhcCchHHHHHHHHhhc-C-cCCcChHHHHHHHHhcCccccccHH-HHhh
Q 015918          260 RKEVWENAISKLEMVPQM---EIQEVLKISYDGLDDKEKNIFLDIAC-F-LVGEDRDIVTKYLNACEFFATSGIE-VLVD  333 (398)
Q Consensus       260 ~~~~~~~~~~~l~~~~~~---~v~~~l~~~~~~L~~~~~~~l~~la~-~-~~~~~~~~l~~~~~~~~~~~~~~l~-~L~~  333 (398)
                      .     ... .-......   .....+...=..|..-.++.|..+.- | +.++..+.+...++.+....++.++ -|++
T Consensus       231 a-----~V~-~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EPyLiq  304 (332)
T COG2255         231 A-----QVK-GDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEPYLIQ  304 (332)
T ss_pred             H-----HHh-cCCcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhHHHHH
Confidence            1     000 00000011   11122222223345555555543333 3 3448888888888776665555554 5888


Q ss_pred             ccCeeeccCCce
Q 015918          334 KSLITISEYNKI  345 (398)
Q Consensus       334 ~~Ll~~~~~~~~  345 (398)
                      .|+++.+..|+.
T Consensus       305 ~gfi~RTpRGR~  316 (332)
T COG2255         305 QGFIQRTPRGRI  316 (332)
T ss_pred             hchhhhCCCcce
Confidence            999998877864

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

Probab=98.94  E-value=1.8e-08  Score=90.82  Aligned_cols=154  Identities=16%  Similarity=0.247  Sum_probs=96.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      +..+.+++|||+|+||||||+.++..-+.+-  ..|+.    .+....-..-+.+++.+-..               ...
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfve----lSAt~a~t~dvR~ife~aq~---------------~~~  218 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVE----LSATNAKTNDVRDIFEQAQN---------------EKS  218 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEE----EeccccchHHHHHHHHHHHH---------------HHh
Confidence            6778899999999999999999998755542  55665    22222222223333333221               123


Q ss_pred             hCCceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEE--EeCChh---HHHhcCCCeeEEcCCCChhhhHHHHHHhh-
Q 015918          150 LTRKKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILI--TARDKQ---ALINCGVNKIYQIKELVHVDALKLLNQCA-  221 (398)
Q Consensus       150 l~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~ili--TsR~~~---~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~-  221 (398)
                      +..++.+|++|+++  +-.+-+.|++..   .+|..++|  ||-++.   ....++.+.++.|++|+.++...++.+-. 
T Consensus       219 l~krkTilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia  295 (554)
T KOG2028|consen  219 LTKRKTILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIA  295 (554)
T ss_pred             hhcceeEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHH
Confidence            46789999999996  445556665554   35555555  443331   22334567889999999999999987632 


Q ss_pred             --cCCC-----CCC---cchHHHHHHHHHHcCCChH
Q 015918          222 --FGRD-----HPD---ASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       222 --~~~~-----~~~---~~~~~~~~~i~~~~~g~Pl  247 (398)
                        ....     .+.   .....+.+.++..|.|-..
T Consensus       296 ~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  296 SLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             hhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence              1111     111   1345677888888888654

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.94  E-value=4.6e-08  Score=94.73  Aligned_cols=193  Identities=14%  Similarity=0.146  Sum_probs=114.9

Q ss_pred             cccCcccccchh--HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSR--IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~e--l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-+..++|....  .....++..... .....++|+|++|+|||+|+..+++.+....  ..++|+.          ..+
T Consensus       113 tFdnFv~g~~n~~A~~aa~~~a~~~~-~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~----------~~~  181 (450)
T PRK14087        113 TFENFVIGSSNEQAFIAVQTVSKNPG-ISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS----------GDE  181 (450)
T ss_pred             chhcccCCCcHHHHHHHHHHHHhCcC-cccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----------HHH
Confidence            444456677654  223333333322 3346789999999999999999999765432  2334443          233


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----HhHHHHHccCCCC-CCCcEEEEEeCChh-HH
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----RQIEFLIGNLDWF-ASGSRILITARDKQ-AL  194 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----~~~~~l~~~l~~~-~~~~~iliTsR~~~-~~  194 (398)
                      +...+...+....       ...+.+...... .-+|+|||++..    ...+.+...+... ..+..+|+|+...+ ..
T Consensus       182 f~~~~~~~l~~~~-------~~~~~~~~~~~~-~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l  253 (450)
T PRK14087        182 FARKAVDILQKTH-------KEIEQFKNEICQ-NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELL  253 (450)
T ss_pred             HHHHHHHHHHHhh-------hHHHHHHHHhcc-CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHH
Confidence            4444444332210       012233333333 338889999632    2233443333221 23446777765432 21


Q ss_pred             --------HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          195 --------INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       195 --------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                              ..+..+..+.+.+++.++..+++.+.+..........++.+..|++.+.|+|..+.-+...+
T Consensus       254 ~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        254 NGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             hhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence                    12235677889999999999999988743222124557889999999999999998777554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.93  E-value=1e-07  Score=89.14  Aligned_cols=198  Identities=13%  Similarity=0.102  Sum_probs=115.7

Q ss_pred             cccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC----cceEEEeechhhhhcCCH
Q 015918           43 TFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF----EGSYFAHNVREAEETGKL  118 (398)
Q Consensus        43 ~~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f----~~~~~~~~~~~~~~~~~~  118 (398)
                      .|.....++|.+...+.+...+..+  ..+..++|+|+.|+||||+|..+++.+...-    .......      .. .-
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~g--rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~------~~-~~   88 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREG--KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLAD------PD-PA   88 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcC--CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCC------CC-CC
Confidence            3456678999999999999999764  2455789999999999999999999864421    0000000      00 00


Q ss_pred             HHHHHHHHHHHhcC-----CCC-CC----CCcc---chHHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCC
Q 015918          119 ADLRKELLSTLLND-----GNM-NK----FPNI---GLNFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWF  178 (398)
Q Consensus       119 ~~~~~~i~~~l~~~-----~~~-~~----~~~~---~~~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~  178 (398)
                      -..+..+.......     ... +.    ....   .+..+...+     .++.-++|||+++.  ......++..+...
T Consensus        89 c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEp  168 (351)
T PRK09112         89 SPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEP  168 (351)
T ss_pred             CHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcC
Confidence            11222221110000     000 00    0111   222222222     34566999999974  44455566655543


Q ss_pred             CCCcEEEEEeCCh-hHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          179 ASGSRILITARDK-QALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       179 ~~~~~iliTsR~~-~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      .....+|++|..+ .+.+. .+.+..+.+.+++.++..+++.....  ...  ...+.+..+++.++|.|.....+.
T Consensus       169 p~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~--~~~--~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        169 PARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGS--SQG--SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhc--ccC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4455555444333 22222 23567899999999999999987431  111  224557889999999998665443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=1.3e-07  Score=93.47  Aligned_cols=195  Identities=12%  Similarity=0.041  Sum_probs=110.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-.+++|.+..++.|..++..+.  -...++++|++|+||||+|+.+++.+...... ....    +..+    ..+..+
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~~--~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~-~~~p----cg~C----~~C~~i   82 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQR--LHHAYLFTGTRGVGKTTLARILAKSLNCETGV-TATP----CGVC----SACLEI   82 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC--CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCC-CCCC----CCCC----HHHHHH
Confidence            44678999999999999987632  34567899999999999999999886432100 0000    0000    000000


Q ss_pred             HHHHhcC-CCCCCCCccchHH---HHHh-----hCCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEeCCh-hH
Q 015918          126 LSTLLND-GNMNKFPNIGLNF---QSKR-----LTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITARDK-QA  193 (398)
Q Consensus       126 ~~~l~~~-~~~~~~~~~~~~~---l~~~-----l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTsR~~-~~  193 (398)
                      ...-... ...+......++.   +...     ..+++-++|||+++...  ....++..+......+.+|++|.++ .+
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~ki  162 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKI  162 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhC
Confidence            0000000 0000000001111   1111     13456699999998543  4566666665544566566555433 22


Q ss_pred             H-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          194 L-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       194 ~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      . ...+.+..+++.+++.++..+.+...+...+  .....+.+..+++.++|.+.-+..+.
T Consensus       163 l~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg--i~~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        163 PVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN--IPFDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             chhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2 1123457789999999999998877663222  22334667889999999887444333

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=4.1e-07  Score=86.54  Aligned_cols=185  Identities=17%  Similarity=0.146  Sum_probs=110.5

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc--------CcceEEEeechhhhhcCC
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR--------FEGSYFAHNVREAEETGK  117 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~--------f~~~~~~~~~~~~~~~~~  117 (398)
                      .-.+++|.+..++.+.+.+..+  .-.+.++++||+|+||||+|..+++.+...        +...++-.  . ......
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~--~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l--~-~~~~~~   89 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENN--HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL--D-AASNNS   89 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe--c-cccCCC
Confidence            4467899999999999999753  245688899999999999999998886432        11111111  0 001111


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCC-hhHH
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARD-KQAL  194 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~-~~~~  194 (398)
                      .. ....+...+....                ..+++-++++|+++..  ..+..+...+......+.+|+++.. ....
T Consensus        90 ~~-~i~~l~~~~~~~p----------------~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~  152 (367)
T PRK14970         90 VD-DIRNLIDQVRIPP----------------QTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKII  152 (367)
T ss_pred             HH-HHHHHHHHHhhcc----------------ccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCC
Confidence            11 1112222211100                1234458999999743  3355565544433344555555532 2222


Q ss_pred             -HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          195 -INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       195 -~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                       ...+.+..+++++++.++....+...+...+.  ...++.++.+++.++|.+..+.....
T Consensus       153 ~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~--~i~~~al~~l~~~~~gdlr~~~~~le  211 (367)
T PRK14970        153 PTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI--KFEDDALHIIAQKADGALRDALSIFD  211 (367)
T ss_pred             HHHHhcceeEecCCccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence             22235567899999999999988876633222  23357789999999998875544433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.93  E-value=9.4e-08  Score=90.61  Aligned_cols=177  Identities=15%  Similarity=0.106  Sum_probs=106.3

Q ss_pred             CcccccchhHHHHHHHhccCCC-------CCceEEEEEcCCCccHHHHHHHHHHHhhccC--------------------
Q 015918           48 NKLVGVDSRIEEILSLLGVGLT-------MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--------------------  100 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~-------~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--------------------  100 (398)
                      +.++|.+..++.|.+++..+..       .-.+.++++||+|+|||++|..+++.+....                    
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            4688999999999999976431       1356788999999999999999998743321                    


Q ss_pred             cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCC
Q 015918          101 EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWF  178 (398)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~  178 (398)
                      +...++..-   .......+ ++++...+...                -..+++-++|||+++..  .....++..+...
T Consensus        85 pD~~~i~~~---~~~i~i~~-iR~l~~~~~~~----------------p~~~~~kViiIDead~m~~~aanaLLk~LEep  144 (394)
T PRK07940         85 PDVRVVAPE---GLSIGVDE-VRELVTIAARR----------------PSTGRWRIVVIEDADRLTERAANALLKAVEEP  144 (394)
T ss_pred             CCEEEeccc---cccCCHHH-HHHHHHHHHhC----------------cccCCcEEEEEechhhcCHHHHHHHHHHhhcC
Confidence            112222100   00011111 11111111100                01234558899999743  3445566655544


Q ss_pred             CCCcEEEEEeCCh-hHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHH
Q 015918          179 ASGSRILITARDK-QALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKI  251 (398)
Q Consensus       179 ~~~~~iliTsR~~-~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~  251 (398)
                      +++..+|++|.+. .+.+. .+.+..+.+.+++.++..+.+.... +  .    ..+.+..++..++|.|.....
T Consensus       145 ~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~-~--~----~~~~a~~la~~s~G~~~~A~~  212 (394)
T PRK07940        145 PPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD-G--V----DPETARRAARASQGHIGRARR  212 (394)
T ss_pred             CCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc-C--C----CHHHHHHHHHHcCCCHHHHHH
Confidence            4566566655543 33332 2456889999999999998886432 1  1    134577889999999975433

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.92  E-value=2.3e-07  Score=92.36  Aligned_cols=197  Identities=12%  Similarity=0.101  Sum_probs=115.1

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcce----EEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGS----YFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~----~~~~~~~~~~~~~~~~~  120 (398)
                      ..-.+++|.+..++.|.+++..+  .-...++++|++|+||||+|+.+++.+.......    .+-.+    ..+    .
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~g--ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~c----g~c----~   90 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETG--RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLC----GVG----E   90 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccC----ccc----H
Confidence            34567999999999999999763  2355788999999999999999999864332110    00000    000    0


Q ss_pred             HHHHHHHHHhcCC-CCCCCCccchHHHH---Hh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeC
Q 015918          121 LRKELLSTLLNDG-NMNKFPNIGLNFQS---KR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       121 ~~~~i~~~l~~~~-~~~~~~~~~~~~l~---~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      .+..+.......- ..+......++.++   ..     ...++-++|||+++..  .....|+..+......+.+|+++.
T Consensus        91 ~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tt  170 (598)
T PRK09111         91 HCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATT  170 (598)
T ss_pred             HHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeC
Confidence            1111110000000 00000001111111   11     1234458999999743  446666666655455666665553


Q ss_pred             -ChhHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          190 -DKQALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       190 -~~~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                       ...+.. ..+.+..+.+.+++.++....+.+.+.....  ....+.+..+++.++|.+..+....
T Consensus       171 e~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi--~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        171 EIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV--EVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             ChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             333222 2245678999999999999999887632222  2334778999999999998765544

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

Probab=98.92  E-value=5.2e-08  Score=98.99  Aligned_cols=179  Identities=20%  Similarity=0.226  Sum_probs=105.4

Q ss_pred             cccCcccccchhHH---HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIE---EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~---~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..-.+|+|++..+.   .+.+.+..   +....++|+||+|+||||||+.+++.....|   ..+.    .. .....++
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~---~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f---~~ln----a~-~~~i~di   93 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKA---DRVGSLILYGPPGVGKTTLARIIANHTRAHF---SSLN----AV-LAGVKDL   93 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhc---CCCceEEEECCCCCCHHHHHHHHHHHhcCcc---eeeh----hh-hhhhHHH
Confidence            34456899999884   56666655   4556789999999999999999998865543   1121    10 0011111


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChhH-----H
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQA-----L  194 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~~-----~  194 (398)
                       ..++....             . .. ...+++.+|+|||++.  ....+.+...+.   .+..+++++..++.     .
T Consensus        94 -r~~i~~a~-------------~-~l-~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~  154 (725)
T PRK13341         94 -RAEVDRAK-------------E-RL-ERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNK  154 (725)
T ss_pred             -HHHHHHHH-------------H-Hh-hhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhh
Confidence             11111110             0 00 0123567999999974  344555555432   34444443332211     1


Q ss_pred             HhcCCCeeEEcCCCChhhhHHHHHHhhcC-----CCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          195 INCGVNKIYQIKELVHVDALKLLNQCAFG-----RDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       195 ~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~-----~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      ...+....+.+++++.++...++.+.+..     ........++..+.+++.+.|+..-+.-+.
T Consensus       155 aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~L  218 (725)
T PRK13341        155 ALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNAL  218 (725)
T ss_pred             HhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            12234567999999999999999876531     012233456788999999999877555443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.92  E-value=2.1e-07  Score=91.57  Aligned_cols=196  Identities=14%  Similarity=0.067  Sum_probs=109.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-..++|++..++.+.+++..+  ..++.++++||+|+||||+|+.+++.+...-....-.|     ..+    ..+..
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~--rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~C-----g~C----~sCr~   81 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNN--KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCC-----NSC----SVCES   81 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC-----ccc----HHHHH
Confidence            34567999999999999998653  23467889999999999999999988642211000000     000    00111


Q ss_pred             HHHHHhcCC-CCCCCCccch---HHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-h
Q 015918          125 LLSTLLNDG-NMNKFPNIGL---NFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-Q  192 (398)
Q Consensus       125 i~~~l~~~~-~~~~~~~~~~---~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~  192 (398)
                      +.......- ..+......+   ..+....     ..++-++|||+++.  ......|+..+...+..+.+|++|... .
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~K  161 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQK  161 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHh
Confidence            100000000 0000000111   1111111     12334799999974  334555655554434455555555333 3


Q ss_pred             HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          193 ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       193 ~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +.. ..+.+..+++.+++.++....+...+...+.  ....+.+..+++.++|.+.-+..+.
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi--~Is~eal~~La~lS~GdlR~AlnlL  221 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI--KIEDNAIDKIADLADGSLRDGLSIL  221 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            322 2345678999999999999998876632221  2234668899999999886444333

>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=98.92  E-value=2.6e-08  Score=81.28  Aligned_cols=54  Identities=26%  Similarity=0.329  Sum_probs=43.0

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +|++.+++.+...+..   ...+.+.|+|++|+|||++++.+++.+......++++.
T Consensus         1 ~~~~~~~~~i~~~~~~---~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   54 (151)
T cd00009           1 VGQEEAIEALREALEL---PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN   54 (151)
T ss_pred             CchHHHHHHHHHHHhC---CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe
Confidence            4788999999998865   34578999999999999999999998754444455554

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.91  E-value=3.1e-07  Score=94.58  Aligned_cols=187  Identities=11%  Similarity=0.045  Sum_probs=110.8

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechhhhhcCCHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-.++||.+..++.|..++..+.  -...++++|+.|+||||+|+.+++.+....     .|..  |        .+   
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~~~r--i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~--C--------~s---   77 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALDSGR--INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGE--C--------DS---   77 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcc--c--------HH---
Confidence            34579999999999999997632  335678999999999999999998864211     1110  0        00   


Q ss_pred             HHHHHHHHHhcCC---CCCCCCccchHH---HHH-----hhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEE
Q 015918          121 LRKELLSTLLNDG---NMNKFPNIGLNF---QSK-----RLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILIT  187 (398)
Q Consensus       121 ~~~~i~~~l~~~~---~~~~~~~~~~~~---l~~-----~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliT  187 (398)
                       +..+...-....   ..+......++.   +..     -..++.-++|||+++.  ......|+..+......+.+|++
T Consensus        78 -C~~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~  156 (824)
T PRK07764         78 -CVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFA  156 (824)
T ss_pred             -HHHHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEE
Confidence             111100000000   000000001111   111     1234555899999984  34566666666655566666655


Q ss_pred             eCC-hhHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHH
Q 015918          188 ARD-KQALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALK  250 (398)
Q Consensus       188 sR~-~~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~  250 (398)
                      |.+ ..+.. ..+.+..+++.+++.++..+++.+.+.....  ....+.+..+++.++|.+..+.
T Consensus       157 tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv--~id~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        157 TTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV--PVEPGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             eCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence            543 33333 2346788999999999999999876632222  2234667889999999885444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.91  E-value=4.5e-07  Score=89.89  Aligned_cols=191  Identities=13%  Similarity=0.076  Sum_probs=109.8

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-.+++|.+..++.|.+++..+  .-...++++||+|+||||+|+.+++.+....... ...    +..+    ..+..+
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~--r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-~~p----Cg~C----~~C~~i   79 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAG--RINHAYLFSGPRGCGKTSSARILARSLNCAQGPT-ATP----CGVC----ESCVAL   79 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-CCc----cccc----HHHHHh
Confidence            4467999999999999999763  2344578999999999999999998854211000 000    0000    001111


Q ss_pred             HHHHhcCC---CCCCCCccchHHH---HHh-----hCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCC-h
Q 015918          126 LSTLLNDG---NMNKFPNIGLNFQ---SKR-----LTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARD-K  191 (398)
Q Consensus       126 ~~~l~~~~---~~~~~~~~~~~~l---~~~-----l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~-~  191 (398)
                      ........   ..+......++.+   ...     ..++.-++|||+++.  ......|+..+......+.+|++|.+ .
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            00000000   0000000011111   111     123455899999974  44566666666554556666655544 3


Q ss_pred             hHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          192 QALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       192 ~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      .+.. ..+.+..+.+.+++.++..+.+...+...+.  ....+.+..+++.++|.+..+
T Consensus       160 kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi--~i~~~al~~Ia~~s~GdlR~a  216 (584)
T PRK14952        160 KVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV--VVDDAVYPLVIRAGGGSPRDT  216 (584)
T ss_pred             hhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            3332 2345788999999999999999876633222  233466788999999988643

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.91  E-value=2e-07  Score=89.21  Aligned_cols=201  Identities=10%  Similarity=0.094  Sum_probs=112.1

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEee-chhhhhcCCHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHN-VREAEETGKLADLR  122 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~-~~~~~~~~~~~~~~  122 (398)
                      .-.+++|.+...+.|.+++..+.  -...++++||+|+||||+|..+++.+...-  +..-|... ...+..+    ..+
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~--~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c----~~c   87 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGR--VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGEC----ESC   87 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCC--cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCC----HHH
Confidence            44679999999999999887632  234588999999999999999998864321  00000000 0000000    001


Q ss_pred             HHHHHHHhcCC-CCCCCCcc---chHHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCC-
Q 015918          123 KELLSTLLNDG-NMNKFPNI---GLNFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARD-  190 (398)
Q Consensus       123 ~~i~~~l~~~~-~~~~~~~~---~~~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~-  190 (398)
                      ..+.......- ..+.....   .+..+...+     .+.+-++|+|+++..  ..+..++..+....+...+|+++.. 
T Consensus        88 ~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~  167 (397)
T PRK14955         88 RDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTEL  167 (397)
T ss_pred             HHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            11100000000 00000000   111111222     234558999999744  3566666666554556666555533 


Q ss_pred             hhHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          191 KQALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       191 ~~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      ..+... .+....+++.+++.++..+.+...+....  ....++.+..+++.++|.+.-+.....
T Consensus       168 ~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g--~~i~~~al~~l~~~s~g~lr~a~~~L~  230 (397)
T PRK14955        168 HKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG--ISVDADALQLIGRKAQGSMRDAQSILD  230 (397)
T ss_pred             HHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            333222 23456788999999999998887663221  223457799999999999976655443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.90  E-value=8.7e-08  Score=84.89  Aligned_cols=154  Identities=21%  Similarity=0.212  Sum_probs=96.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      .+.+.|+|++|+|||.|+..+++.+..+...++|++    ..      ++....                  ..+...+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~----~~------~~~~~~------------------~~~~~~~~   96 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP----LA------ELLDRG------------------PELLDNLE   96 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee----HH------HHHhhh------------------HHHHHhhh
Confidence            467899999999999999999988766555677766    21      111100                  11222222


Q ss_pred             CceEEEEEeCCCCh---HhH-HHHHccCCC-CCCCcEEEEEeCChhHH---------HhcCCCeeEEcCCCChhhhHHHH
Q 015918          152 RKKVLIVFDDVNHP---RQI-EFLIGNLDW-FASGSRILITARDKQAL---------INCGVNKIYQIKELVHVDALKLL  217 (398)
Q Consensus       152 ~~~~LlvlDd~~~~---~~~-~~l~~~l~~-~~~~~~iliTsR~~~~~---------~~~~~~~~~~l~~L~~~e~~~Ll  217 (398)
                      +-. +|+|||++..   ..+ +.+...+.. ...+..+|+|++..+..         ..+.....+++.+++.++-..++
T Consensus        97 ~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il  175 (234)
T PRK05642         97 QYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRAL  175 (234)
T ss_pred             hCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHH
Confidence            222 6889999622   222 224333322 13456788888754221         11124577899999999999999


Q ss_pred             HHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          218 NQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ...+....  ....+++.+.+++.+.|....+..+...+
T Consensus       176 ~~ka~~~~--~~l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        176 QLRASRRG--LHLTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            86553332  22346889999999998888776665554

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.89  E-value=7.9e-08  Score=96.41  Aligned_cols=197  Identities=13%  Similarity=0.096  Sum_probs=112.8

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-.+++|.+..++.|..++..+  .-...++++|++|+||||+|+.+++.+...........    +   . .-..+..+
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~~--~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~----c---~-~c~~c~~i   83 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAEG--RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRP----C---G-TCEMCRAI   83 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhC--CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC----C---c-cCHHHHHH
Confidence            4467999999999999988753  23456789999999999999999988642211000000    0   0 00111111


Q ss_pred             HHHHhcCC-CCCCCCccch---HHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hH
Q 015918          126 LSTLLNDG-NMNKFPNIGL---NFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QA  193 (398)
Q Consensus       126 ~~~l~~~~-~~~~~~~~~~---~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~  193 (398)
                      ........ ..+.......   ..+...+     ..++-++|||+++..  .....|+..+........+|+++.+. .+
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kl  163 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKV  163 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhh
Confidence            11110000 0000000111   1111111     234569999999743  44666666655444555566555433 22


Q ss_pred             HH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          194 LI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       194 ~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      .. ..+.+..+.+.+++..+....+...+...+.  ....+.+..+++.++|.+..+.....
T Consensus       164 l~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl--~i~~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        164 PATILSRCQRFDFHRHSVADMAAHLRKIAAAEGI--NLEPGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             hHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            22 2245577889999999999888876633222  23356788999999999976655443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=9.4e-07  Score=86.27  Aligned_cols=195  Identities=10%  Similarity=0.029  Sum_probs=110.8

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-----CcceEEEeechhhhhcCCHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-----FEGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-..++|.+...+.|.+++....  -.+..+++|++|+||||+|+.+++.+...     .+|....++ ..... ....+
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~--i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc-~~i~~-g~~~d   89 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQR--VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENC-VEIDK-GSFPD   89 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHH-HHHhc-CCCCc
Confidence            34578999999999999997632  34566789999999999999999886421     111110000 00000 00000


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEe-CChh
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITA-RDKQ  192 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTs-R~~~  192 (398)
                      +.     .+  .... ...-..+..+....     .+++-++|||+++..  .....++..+....+...+|++| ....
T Consensus        90 ~~-----ei--daas-~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~k  161 (486)
T PRK14953         90 LI-----EI--DAAS-NRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDK  161 (486)
T ss_pred             EE-----EE--eCcc-CCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHH
Confidence            00     00  0000 00000111222211     245669999999744  34555655555434445455544 3333


Q ss_pred             HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          193 ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       193 ~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      +.. ..+.+..+.+.+++.++....+..++...+.  ....+.+..+++.++|++..+.....
T Consensus       162 l~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi--~id~~al~~La~~s~G~lr~al~~Ld  222 (486)
T PRK14953        162 IPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI--EYEEKALDLLAQASEGGMRDAASLLD  222 (486)
T ss_pred             HHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            322 2345678999999999999998886633222  23356788899999998876655543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=4.2e-07  Score=89.92  Aligned_cols=196  Identities=13%  Similarity=0.112  Sum_probs=112.1

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-.+++|.+...+.|.+.+....  -...++++|++|+||||+|+.+++.+.....  ...+..       +    ..+.
T Consensus        14 sf~dIiGQe~v~~~L~~ai~~~r--i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~-------C----~sC~   80 (624)
T PRK14959         14 TFAEVAGQETVKAILSRAAQENR--VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNT-------C----EQCR   80 (624)
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCC--CCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcc-------c----HHHH
Confidence            44578999999999999887532  2567889999999999999999988642210  000000       0    0001


Q ss_pred             HHHHHHhcCC-CCCCCCccch---HHHHHh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-
Q 015918          124 ELLSTLLNDG-NMNKFPNIGL---NFQSKR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-  191 (398)
Q Consensus       124 ~i~~~l~~~~-~~~~~~~~~~---~~l~~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-  191 (398)
                      .+........ ..+......+   ..+...     ..++.-+||||+++..  .....|+..+........+|++|.+. 
T Consensus        81 ~i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~  160 (624)
T PRK14959         81 KVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPH  160 (624)
T ss_pred             HHhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChh
Confidence            1100000000 0000000011   111111     1345569999999754  44566666654434455566655443 


Q ss_pred             hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHHHHHHh
Q 015918          192 QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKILGRFL  256 (398)
Q Consensus       192 ~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~l~~~l  256 (398)
                      .+. ...+.+..+++.+++.++..+.+...+.....  ....+.+..+++.++|.+ .++..+-+.+
T Consensus       161 kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi--~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        161 KFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV--DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            333 22345678899999999999999876632221  233577899999999976 4666555443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.86  E-value=6.7e-07  Score=83.06  Aligned_cols=176  Identities=14%  Similarity=0.196  Sum_probs=111.4

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc-----cCcceEEEeechhhhhcCCHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR-----RFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-----~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      .+++|.+...+.+.+++..+  .-++...++||.|+||||+|..+++.+..     .++....+...  ........++ 
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~--~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~--~~~~i~v~~i-   78 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN--RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI--NKKSIGVDDI-   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC--CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc--cCCCCCHHHH-
Confidence            45789899999999998753  24567789999999999999999987532     22233222210  0111222222 


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeCChhHH-Hh-cC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITARDKQAL-IN-CG  198 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~-~~-~~  198 (398)
                      .++...+....                ..+++-++|||+++  +......++..+...+.++.+|++|.+.... +. .+
T Consensus        79 r~~~~~~~~~p----------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~S  142 (313)
T PRK05564         79 RNIIEEVNKKP----------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKS  142 (313)
T ss_pred             HHHHHHHhcCc----------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHh
Confidence            22222221111                12345578888886  4556777887777667778888777655321 11 24


Q ss_pred             CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHH
Q 015918          199 VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALK  250 (398)
Q Consensus       199 ~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~  250 (398)
                      .+..+.+.+++.++....+.+...  .    ...+.+..++..++|.|.-+.
T Consensus       143 Rc~~~~~~~~~~~~~~~~l~~~~~--~----~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        143 RCQIYKLNRLSKEEIEKFISYKYN--D----IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             hceeeeCCCcCHHHHHHHHHHHhc--C----CCHHHHHHHHHHcCCCHHHHH
Confidence            567899999999999998876541  1    113447788899999887554

>PRK09087 hypothetical protein; Validated

Probab=98.86  E-value=1.7e-07  Score=82.38  Aligned_cols=146  Identities=13%  Similarity=0.090  Sum_probs=91.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ..+.+.|+|++|+|||+|++.+++..     ...|+.    ..      .+..++...+                     
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~~i~----~~------~~~~~~~~~~---------------------   86 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS-----DALLIH----PN------EIGSDAANAA---------------------   86 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc-----CCEEec----HH------HcchHHHHhh---------------------
Confidence            34678999999999999999988763     223544    10      1111111111                     


Q ss_pred             CCceEEEEEeCCCChH-hHHHHHccCCCC-CCCcEEEEEeCCh---------hHHHhcCCCeeEEcCCCChhhhHHHHHH
Q 015918          151 TRKKVLIVFDDVNHPR-QIEFLIGNLDWF-ASGSRILITARDK---------QALINCGVNKIYQIKELVHVDALKLLNQ  219 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~~-~~~~l~~~l~~~-~~~~~iliTsR~~---------~~~~~~~~~~~~~l~~L~~~e~~~Ll~~  219 (398)
                      .+  -+|+|||++... .-..+...+... ..+..+|+|++..         .....+.....+++++++.++-.+++.+
T Consensus        87 ~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~  164 (226)
T PRK09087         87 AE--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFK  164 (226)
T ss_pred             hc--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHH
Confidence            01  178899996321 122233333211 3466788888743         2233334668899999999999999998


Q ss_pred             hhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          220 CAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      .+....  ....+++.+.+++++.|....+..+...+
T Consensus       165 ~~~~~~--~~l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        165 LFADRQ--LYVDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHHHcC--CCCCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            874332  23446889999999998888777554444

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

Probab=98.85  E-value=5.4e-08  Score=100.29  Aligned_cols=175  Identities=15%  Similarity=0.124  Sum_probs=98.4

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhhcCCHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .+++||+.++..+.+.|...   ...-++++|++|+|||++|..+++++....      ...+|..+....         
T Consensus       182 ~~~igr~~ei~~~~~~L~~~---~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l---------  249 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR---KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL---------  249 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC---CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH---------
Confidence            47999999999999988763   345678999999999999999999864431      223343311111         


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-----------HhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-----------RQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-----------~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      ...       .......+......+...-...+++|+||+++..           +..+.+.+.+.  ....++|-+|..
T Consensus       250 ~a~-------~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~--~g~i~~IgaTt~  320 (731)
T TIGR02639       250 LAG-------TKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS--SGKLRCIGSTTY  320 (731)
T ss_pred             hhh-------ccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh--CCCeEEEEecCH
Confidence            100       0000011111122222222345789999999632           11223333332  234455555544


Q ss_pred             hhHH-------HhcCCCeeEEcCCCChhhhHHHHHHhhcC--CCCCCcchHHHHHHHHHHcC
Q 015918          191 KQAL-------INCGVNKIYQIKELVHVDALKLLNQCAFG--RDHPDASYIELTHEAIKYAQ  243 (398)
Q Consensus       191 ~~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~--~~~~~~~~~~~~~~i~~~~~  243 (398)
                      .+..       ...+....+.+++++.++..++++.....  .........+....+++.+.
T Consensus       321 ~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~  382 (731)
T TIGR02639       321 EEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSA  382 (731)
T ss_pred             HHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhh
Confidence            2221       11234578999999999999999864421  11112234455666666654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.83  E-value=5.4e-08  Score=101.17  Aligned_cols=176  Identities=15%  Similarity=0.146  Sum_probs=103.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc------ceEEEeechhhhh----c
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE------GSYFAHNVREAEE----T  115 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~------~~~~~~~~~~~~~----~  115 (398)
                      .-.+++||+.++.++.+.|..   .....++++|++|+||||+|..+++++.....      ..+|...+.....    .
T Consensus       185 ~ld~~iGr~~ei~~~i~~l~r---~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~  261 (852)
T TIGR03345       185 KIDPVLGRDDEIRQMIDILLR---RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVK  261 (852)
T ss_pred             CCCcccCCHHHHHHHHHHHhc---CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccc
Confidence            335899999999999998876   34456779999999999999999998754321      2233222211110    0


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCChH-------hHH---HHHccCCCCCCCcEE
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHPR-------QIE---FLIGNLDWFASGSRI  184 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~~-------~~~---~l~~~l~~~~~~~~i  184 (398)
                      ..+..-+.                    ..+.... .+.+++|+||+++...       ..+   .|.+.+.  ....++
T Consensus       262 ge~e~~lk--------------------~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~  319 (852)
T TIGR03345       262 GEFENRLK--------------------SVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRT  319 (852)
T ss_pred             hHHHHHHH--------------------HHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEE
Confidence            11111111                    1122111 2468899999996431       111   2333332  334566


Q ss_pred             EEEeCChhHH-------HhcCCCeeEEcCCCChhhhHHHHHHhhc--CCCCCCcchHHHHHHHHHHcCCCh
Q 015918          185 LITARDKQAL-------INCGVNKIYQIKELVHVDALKLLNQCAF--GRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       185 liTsR~~~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~--~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      |-+|..++..       ...+.+..+.+++++.+++.++++....  .........++....+++.+.++.
T Consensus       320 IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       320 IAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             EEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            6666554321       1224567899999999999999754331  111122344566777777776544

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.

>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=98.83  E-value=2.3e-06  Score=80.09  Aligned_cols=276  Identities=13%  Similarity=0.089  Sum_probs=144.3

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHH-HHHHHHhhccCcceEEEeechhhhhcC---------------
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIA-GAFFSKISRRFEGSYFAHNVREAEETG---------------  116 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa-~~~~~~~~~~f~~~~~~~~~~~~~~~~---------------  116 (398)
                      |.+.+++|..||..   .....|+|+||.|+||+.|+ .++.+..    +.+.++.|-. +....               
T Consensus         1 R~e~~~~L~~wL~e---~~~TFIvV~GPrGSGK~elV~d~~L~~r----~~vL~IDC~~-i~~ar~D~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNE---NPNTFIVVQGPRGSGKRELVMDHVLKDR----KNVLVIDCDQ-IVKARGDAAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhc---CCCeEEEEECCCCCCccHHHHHHHHhCC----CCEEEEEChH-hhhccChHHHHHHHHHhcCC
Confidence            67789999999987   44569999999999999999 6666542    2244444211 11111               


Q ss_pred             --------CHHHHHHHHHHHHhcCCC--CCCCCccchHHH-------HH-------------------hh---CCceEEE
Q 015918          117 --------KLADLRKELLSTLLNDGN--MNKFPNIGLNFQ-------SK-------------------RL---TRKKVLI  157 (398)
Q Consensus       117 --------~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~l-------~~-------------------~l---~~~~~Ll  157 (398)
                              ++..+++-....+.+...  ....+.+....+       +.                   ++   ...+.+|
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                    111222211111211111  111111111111       11                   00   1236799


Q ss_pred             EEeCCCCh--------HhHHHHHccCCCCCCCcEEEEEeCChhHHHhc------CCCeeEEcCCCChhhhHHHHHHhhcC
Q 015918          158 VFDDVNHP--------RQIEFLIGNLDWFASGSRILITARDKQALINC------GVNKIYQIKELVHVDALKLLNQCAFG  223 (398)
Q Consensus       158 vlDd~~~~--------~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~------~~~~~~~l~~L~~~e~~~Ll~~~~~~  223 (398)
                      ||||+..-        +.+.++...+.. .+-.+||+.|-+......+      .....+.|...+++.+.+++..++..
T Consensus       153 VIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~  231 (431)
T PF10443_consen  153 VIDNFLHKAEENDFIYDKLAEWAASLVQ-NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDE  231 (431)
T ss_pred             EEcchhccCcccchHHHHHHHHHHHHHh-cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhcc
Confidence            99999321        112222222211 3455788888665433322      25577899999999999999988743


Q ss_pred             CCCC-------------C-----cchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHHHhccCChhhHHHHHHH
Q 015918          224 RDHP-------------D-----ASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKI  285 (398)
Q Consensus       224 ~~~~-------------~-----~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~~l~~~~~~~v~~~l~~  285 (398)
                      ....             .     .....-.+.+++..||--.-|+.+++.++...  .-..+++.   ....++..+.+.
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe--~p~~Av~~---iI~qsa~eI~k~  306 (431)
T PF10443_consen  232 DTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGE--SPEEAVEE---IISQSASEIRKM  306 (431)
T ss_pred             cccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCC--CHHHHHHH---HHHHHHHHHHHH
Confidence            2110             0     12345578899999999999999999998732  11112222   123333334333


Q ss_pred             hHh-c------CchHHHHHHHHhhcCcCC--cChHHHHHHHHhcCc-cccccHHHHhhccCeeecc-CCc
Q 015918          286 SYD-G------LDDKEKNIFLDIACFLVG--EDRDIVTKYLNACEF-FATSGIEVLVDKSLITISE-YNK  344 (398)
Q Consensus       286 ~~~-~------L~~~~~~~l~~la~~~~~--~~~~~l~~~~~~~~~-~~~~~l~~L~~~~Ll~~~~-~~~  344 (398)
                      -+. .      ++=...+++..+-.+...  ++...+  ++...-. ..+..|..|.+..||+... +|+
T Consensus       307 fl~~~~~~~~~~~Wt~~QaW~LIk~Ls~~~~v~Y~~l--l~~~lFk~~~E~~L~aLe~aeLItv~~~~G~  374 (431)
T PF10443_consen  307 FLLDDSDDAKSLKWTREQAWYLIKLLSKNDEVPYNEL--LLSPLFKGNDETALRALEQAELITVTTDNGR  374 (431)
T ss_pred             HhcCCCCcccCCCCCHHHHHHHHHHhccCCcCcHHHH--HcccccCCCChHHHHHHHHCCcEEEEecCCc
Confidence            333 0      110112222222222222  443332  2211111 2456899999999999553 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 [].

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.80  E-value=1.7e-06  Score=83.93  Aligned_cols=194  Identities=15%  Similarity=0.113  Sum_probs=110.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhhcCCHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~  119 (398)
                      .-.+++|.+..++.|.+++..+  .-.+.++++|++|+||||+|+.+++.+...-      +|.....+. .......+ 
T Consensus        15 ~~~diiGq~~~v~~L~~~i~~~--~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~-~i~~~~~~-   90 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALRFN--RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCK-EISSGTSL-   90 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC--CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHH-HHhcCCCC-
Confidence            4467999999999999999753  2346688999999999999999998864321      111000000 00000000 


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-  191 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-  191 (398)
                      ++     -.+  .+.. ...-..+..+...     ..+.+-++|+|+++..  .....|...+........+|+++... 
T Consensus        91 d~-----~~i--~g~~-~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~  162 (451)
T PRK06305         91 DV-----LEI--DGAS-HRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIH  162 (451)
T ss_pred             ce-----EEe--eccc-cCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChH
Confidence            00     000  0000 0000001111111     1245668999999743  34555655555444566666665432 


Q ss_pred             hHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          192 QALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       192 ~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      .+.. ..+.+..+++.+++.++..+.+...+...+  ....++.+..+++.++|.+.-+....
T Consensus       163 kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg--~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        163 KIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG--IETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             hcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2222 224567899999999999998887653222  12335678999999999886554443

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.80  E-value=1.2e-08  Score=93.85  Aligned_cols=284  Identities=18%  Similarity=0.181  Sum_probs=183.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ...+.+.++|++|+||||++-++.. +...|.+.+++++....   .+...+...+...++.+.   ...+..+..+...
T Consensus        12 ~~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pi---tD~~~v~~~~ag~~gl~~---~~g~~~~~~~~~~   84 (414)
T COG3903          12 TALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPI---TDPALVFPTLAGALGLHV---QPGDSAVDTLVRR   84 (414)
T ss_pred             hhhheeeeeccCccceehhhhhhHh-Hhhhcccceeeeecccc---CchhHhHHHHHhhccccc---ccchHHHHHHHHH
Confidence            3457899999999999999999999 88999999988754433   344444444444444432   2223355567777


Q ss_pred             hCCceEEEEEeCCCChH-hHHHHHccCCCCCCCcEEEEEeCChhHHHhcCCCeeEEcCCCChh-hhHHHHHHhhcC---C
Q 015918          150 LTRKKVLIVFDDVNHPR-QIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHV-DALKLLNQCAFG---R  224 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~-~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~-e~~~Ll~~~~~~---~  224 (398)
                      ..+++.++++||..+.. ....+...+....+...++.|+|+....   .......+++|+.. ++.++|...+.-   +
T Consensus        85 ~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~  161 (414)
T COG3903          85 IGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALS  161 (414)
T ss_pred             HhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccc
Confidence            78899999999986443 2222333333224556688888865221   23455677777765 677776654421   1


Q ss_pred             CCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHH----HHHHHHhccCC------hhhHHHHHHHhHhcCchHH
Q 015918          225 DHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVW----ENAISKLEMVP------QMEIQEVLKISYDGLDDKE  294 (398)
Q Consensus       225 ~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~----~~~~~~l~~~~------~~~v~~~l~~~~~~L~~~~  294 (398)
                      .............|-++..|.|++|...+...+.-.....    ......+.+..      .......+.-++.-|+..+
T Consensus       162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe  241 (414)
T COG3903         162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWE  241 (414)
T ss_pred             eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHH
Confidence            1222233455778889999999999999988876332211    11111222221      2334566777788899999


Q ss_pred             HHHHHHhhcCcCCcChHHHHHHHHhcC-----ccccccHHHHhhccCeeecc---CCceEecHHHHHHHHHHHhhcC
Q 015918          295 KNIFLDIACFLVGEDRDIVTKYLNACE-----FFATSGIEVLVDKSLITISE---YNKIRMHDLMRNMGREIVRQES  363 (398)
Q Consensus       295 ~~~l~~la~~~~~~~~~~l~~~~~~~~-----~~~~~~l~~L~~~~Ll~~~~---~~~~~~H~lir~~~~~~~~~~~  363 (398)
                      +-.+..++.|...++.+..........     ......+..|++++++....   .-.|+.-.-.+.|+.+.+.+..
T Consensus       242 ~~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~~  318 (414)
T COG3903         242 RALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRSG  318 (414)
T ss_pred             HHHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999988888874332222111     11334678888999988654   2258888899999999988775

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.80  E-value=3e-07  Score=89.72  Aligned_cols=189  Identities=15%  Similarity=0.101  Sum_probs=110.9

Q ss_pred             cccCcccccchhH--HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRI--EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el--~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-+..++|....+  ..+.++..... ...+.++|+|++|+|||+|+..+++.+..+++  .+.|+.    .      .+
T Consensus       120 tfd~fv~g~~n~~a~~~~~~~~~~~~-~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~----~------~~  188 (450)
T PRK00149        120 TFDNFVVGKSNRLAHAAALAVAENPG-KAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT----S------EK  188 (450)
T ss_pred             cccccccCCCcHHHHHHHHHHHhCcC-ccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE----H------HH
Confidence            4445566766653  33333333322 34567999999999999999999999877643  344544    1      22


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----hHHHHHccCCC-CCCCcEEEEEeCChh-H-
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----QIEFLIGNLDW-FASGSRILITARDKQ-A-  193 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----~~~~l~~~l~~-~~~~~~iliTsR~~~-~-  193 (398)
                      +...+...+...         ....+...+. ..-+|+|||++...    ..+.++..+.. ...+..+++|+...+ . 
T Consensus       189 ~~~~~~~~~~~~---------~~~~~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l  258 (450)
T PRK00149        189 FTNDFVNALRNN---------TMEEFKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKEL  258 (450)
T ss_pred             HHHHHHHHHHcC---------cHHHHHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHH
Confidence            222333333211         1122333333 24489999996321    12333332221 123445777775432 1 


Q ss_pred             -------HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          194 -------LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       194 -------~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                             ...+.....+++++.+.++-.+++...+...  .....++.++.+++.+.|+...+.-+...+
T Consensus       259 ~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~--~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l  326 (450)
T PRK00149        259 PGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEE--GIDLPDEVLEFIAKNITSNVRELEGALNRL  326 (450)
T ss_pred             HHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHcCcCCCHHHHHHHHHHH
Confidence                   1122345689999999999999999887432  223446889999999999988776554444

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.80  E-value=1.8e-06  Score=85.72  Aligned_cols=190  Identities=13%  Similarity=0.039  Sum_probs=113.5

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-----CcceEEEeechhhhhcCCHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-----FEGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-.+++|-+..++.|..++..+  .-.+.++++|++|+||||+|+.+++.+...     .+|.....          .  
T Consensus        14 ~f~diiGqe~iv~~L~~~i~~~--~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~----------C--   79 (563)
T PRK06647         14 DFNSLEGQDFVVETLKHSIESN--KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSS----------C--   79 (563)
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchH----------H--
Confidence            4467999999999999999763  244568899999999999999999885432     11111000          0  


Q ss_pred             HHHHHHHHHhcC-CCCCCCCccchHHHHH--------hhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeC
Q 015918          121 LRKELLSTLLND-GNMNKFPNIGLNFQSK--------RLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       121 ~~~~i~~~l~~~-~~~~~~~~~~~~~l~~--------~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                        ..+....... ...+...+..++.+..        -..+++-++|||+++..  .....|+..+...+....+|++|.
T Consensus        80 --~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tt  157 (563)
T PRK06647         80 --KSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATT  157 (563)
T ss_pred             --HHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecC
Confidence              0000000000 0000000011111111        11345568999999744  446667766665455666666664


Q ss_pred             Ch-hHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          190 DK-QALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       190 ~~-~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +. .+.. ..+.+..+++.+++.++..+.+...+...+.  ...++.+..+++.++|.+..+..+.
T Consensus       158 e~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi--~id~eAl~lLa~~s~GdlR~alslL  221 (563)
T PRK06647        158 EVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI--KYEDEALKWIAYKSTGSVRDAYTLF  221 (563)
T ss_pred             ChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            43 2222 2345677999999999999999877633222  2345778889999999887555443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.79  E-value=2.1e-06  Score=84.07  Aligned_cols=184  Identities=15%  Similarity=0.101  Sum_probs=113.1

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-C----cc----------------e
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-F----EG----------------S  103 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f----~~----------------~  103 (398)
                      ..-.+++|-+...+.|...+..+  .-.+..+++|++|+||||+|+.+++.+... .    +|                +
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~g--rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv   88 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDNN--RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDI   88 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC--CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeE
Confidence            34467999999999999998763  234566899999999999999999885321 1    11                1


Q ss_pred             EEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCC
Q 015918          104 YFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASG  181 (398)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~  181 (398)
                      +...    ........++. ++.......                -..++.-++|||+++..  +....|+..+-..+..
T Consensus        89 ~eld----aas~~gId~IR-elie~~~~~----------------P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~  147 (535)
T PRK08451         89 IEMD----AASNRGIDDIR-ELIEQTKYK----------------PSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSY  147 (535)
T ss_pred             EEec----cccccCHHHHH-HHHHHHhhC----------------cccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCc
Confidence            1100    00000111111 111111000                01134558999999743  4456666665544556


Q ss_pred             cEEEEEeCCh-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          182 SRILITARDK-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       182 ~~iliTsR~~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +.+|+++.+. .+. ...+.+..+++.+++.++..+.+...+...+.  ...++.+..+++.++|.+.-+..+.
T Consensus       148 t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi--~i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        148 VKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV--SYEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             eEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            6677666554 221 12245678999999999999999876633222  2335778999999999997766554

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=1.7e-06  Score=86.53  Aligned_cols=198  Identities=11%  Similarity=0.077  Sum_probs=110.2

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeec-hhhhhcCCHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNV-REAEETGKLADLR  122 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~-~~~~~~~~~~~~~  122 (398)
                      .-.+++|.+..++.|.+++..+  .-...++++||+|+||||+|+.+++.+.-.-  ....|.... ..+..+.    .+
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~--ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~----sC   87 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMD--RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECE----SC   87 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC--CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCH----HH
Confidence            4467999999999999988753  2345588999999999999999998853321  001111000 0000000    01


Q ss_pred             HHHHHHHhcC-CCCCCCCcc---chHHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeC-C
Q 015918          123 KELLSTLLND-GNMNKFPNI---GLNFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITAR-D  190 (398)
Q Consensus       123 ~~i~~~l~~~-~~~~~~~~~---~~~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR-~  190 (398)
                      ..+...-... ...+.....   .+..+...+     .+.+-++|||+++..  .....|+..+........+|+++. .
T Consensus        88 ~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~  167 (620)
T PRK14954         88 RDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTEL  167 (620)
T ss_pred             HHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            1110000000 000000000   111111111     234448899999754  346666666655445555555443 3


Q ss_pred             hhHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHH
Q 015918          191 KQALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKI  251 (398)
Q Consensus       191 ~~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~  251 (398)
                      ..+.. ..+.+..+++.+++.++....+...+.....  ....+.++.+++.++|...-+..
T Consensus       168 ~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi--~I~~eal~~La~~s~Gdlr~al~  227 (620)
T PRK14954        168 HKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI--QIDADALQLIARKAQGSMRDAQS  227 (620)
T ss_pred             hhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhCCCHHHHHH
Confidence            33332 2356788999999999999888876532221  23356789999999997775443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.78  E-value=4.7e-07  Score=87.27  Aligned_cols=189  Identities=17%  Similarity=0.132  Sum_probs=109.6

Q ss_pred             cccCcccccchhHHH--HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRIEE--ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el~~--l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-+..++|....+..  +.++..... .....++|+|++|+|||+|+..+++.+.++.  ..++|+.          ..+
T Consensus       108 tfd~fi~g~~n~~a~~~~~~~~~~~~-~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~----------~~~  176 (405)
T TIGR00362       108 TFDNFVVGKSNRLAHAAALAVAENPG-KAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS----------SEK  176 (405)
T ss_pred             cccccccCCcHHHHHHHHHHHHhCcC-ccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE----------HHH
Confidence            455556787765432  223333322 3346789999999999999999999876654  2344544          122


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----hHHHHHccCCCC-CCCcEEEEEeCCh-hHH
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----QIEFLIGNLDWF-ASGSRILITARDK-QAL  194 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----~~~~l~~~l~~~-~~~~~iliTsR~~-~~~  194 (398)
                      +...+...+...         ....+...+.+ .-+|+|||++...    ..+.+...+... ..+..+|+|+... ...
T Consensus       177 ~~~~~~~~~~~~---------~~~~~~~~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l  246 (405)
T TIGR00362       177 FTNDFVNALRNN---------KMEEFKEKYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKEL  246 (405)
T ss_pred             HHHHHHHHHHcC---------CHHHHHHHHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHH
Confidence            233333333211         12223333332 2389999996321    122333332211 2345577777542 211


Q ss_pred             H--------hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          195 I--------NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       195 ~--------~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      .        .+.....+.+++.+.++-.+++...+....  ....++.++.+++.+.|+...+.-+...+
T Consensus       247 ~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~--~~l~~e~l~~ia~~~~~~~r~l~~~l~~l  314 (405)
T TIGR00362       247 PGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEG--LELPDEVLEFIAKNIRSNVRELEGALNRL  314 (405)
T ss_pred             hhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            1        122345789999999999999998874322  23346889999999999988766554443

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).

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=2.2e-06  Score=86.26  Aligned_cols=196  Identities=11%  Similarity=0.080  Sum_probs=110.5

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-..++|.+..++.|..++..+  .-.+..+++||+|+||||+|+.+++.+-.......+..+. .+...       ...
T Consensus        16 ~f~dIiGQe~~v~~L~~aI~~~--rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~-~C~~~-------~~~   85 (725)
T PRK07133         16 TFDDIVGQDHIVQTLKNIIKSN--KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQ-ECIEN-------VNN   85 (725)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchh-HHHHh-------hcC
Confidence            4467899999999999999763  2356678999999999999999998753321100000000 00000       000


Q ss_pred             HHHHh-cCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEe-CChhHHH-
Q 015918          126 LSTLL-NDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITA-RDKQALI-  195 (398)
Q Consensus       126 ~~~l~-~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTs-R~~~~~~-  195 (398)
                      -.... ..... ......+..+...+     .+++-++|||+++..  .....|+..+-..+..+.+|++| ....+.. 
T Consensus        86 ~~Dvieidaas-n~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~T  164 (725)
T PRK07133         86 SLDIIEMDAAS-NNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLT  164 (725)
T ss_pred             CCcEEEEeccc-cCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHH
Confidence            00000 00000 00000111222211     245569999999743  45666666655444455555444 3333332 


Q ss_pred             hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          196 NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       196 ~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      ..+.+..+.+.+++.++..+.+...+...+  .....+.+..+++.++|.+.-+..+..
T Consensus       165 I~SRcq~ieF~~L~~eeI~~~L~~il~keg--I~id~eAl~~LA~lS~GslR~AlslLe  221 (725)
T PRK07133        165 ILSRVQRFNFRRISEDEIVSRLEFILEKEN--ISYEKNALKLIAKLSSGSLRDALSIAE  221 (725)
T ss_pred             HHhhceeEEccCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            234567899999999999998887652222  122346688899999998865544433

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.77  E-value=2.1e-06  Score=85.85  Aligned_cols=190  Identities=13%  Similarity=0.101  Sum_probs=108.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechhhhhcCCHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~~  119 (398)
                      ..-.+++|.+...+.|.+++..+  .-...++++|++|+||||+|+.+++.+...-     +|...              
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~~--~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c--------------   76 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDTG--RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVC--------------   76 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCcc--------------
Confidence            34467999999999999998763  2345678999999999999999998854221     11110              


Q ss_pred             HHHHHHHHHHhcC-CCCCCCCcc---chHHHHHhh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEe
Q 015918          120 DLRKELLSTLLND-GNMNKFPNI---GLNFQSKRL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITA  188 (398)
Q Consensus       120 ~~~~~i~~~l~~~-~~~~~~~~~---~~~~l~~~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTs  188 (398)
                      ..+..+...-... ...+...+.   .+..+...+     ..+.-++|||+++..  .....|+..+......+.+|++|
T Consensus        77 ~~c~~i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t  156 (576)
T PRK14965         77 PPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFAT  156 (576)
T ss_pred             HHHHHHhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEe
Confidence            0000000000000 000000000   111111111     234458999999744  34556666555444555555555


Q ss_pred             CC-hhHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH-HHHHH
Q 015918          189 RD-KQALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI-ALKIL  252 (398)
Q Consensus       189 R~-~~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~l  252 (398)
                      .+ ..+.. ..+.+..+++.+++.++....+...+...+.  ...++.+..+++.++|... ++..+
T Consensus       157 ~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi--~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        157 TEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI--SISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             CChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            43 33332 2345678899999999999888776532221  2335678889999999775 44444

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.75  E-value=4.2e-06  Score=82.66  Aligned_cols=189  Identities=12%  Similarity=0.109  Sum_probs=111.3

Q ss_pred             cccCcccccchhHH--HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRIE--EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el~--~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-+..++|-...+.  .+.+...... .....++|+|++|+|||.|+..+++.....+  ..+.|+.          ..+
T Consensus       286 TFDnFvvG~sN~~A~aaa~avae~~~-~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit----------aee  354 (617)
T PRK14086        286 TFDTFVIGASNRFAHAAAVAVAEAPA-KAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS----------SEE  354 (617)
T ss_pred             CHhhhcCCCccHHHHHHHHHHHhCcc-ccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----------HHH
Confidence            44445667766533  3333333322 3345689999999999999999999876532  2345554          123


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh---Hh-HHHHHccCCCC-CCCcEEEEEeCChh---
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP---RQ-IEFLIGNLDWF-ASGSRILITARDKQ---  192 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~---~~-~~~l~~~l~~~-~~~~~iliTsR~~~---  192 (398)
                      +..++...+...         ..+.+...+.+ .-+|+|||++..   .. -+.|+..+... ..+..||+||....   
T Consensus       355 f~~el~~al~~~---------~~~~f~~~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL  424 (617)
T PRK14086        355 FTNEFINSIRDG---------KGDSFRRRYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQL  424 (617)
T ss_pred             HHHHHHHHHHhc---------cHHHHHHHhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhh
Confidence            333333322211         11223333333 247889999532   11 22333333221 33556888886531   


Q ss_pred             ------HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          193 ------ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       193 ------~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                            ....+.....+.|.+.+.+.-.+++.+.+.....  ...+++++.|++.+.++...|.-+...+
T Consensus       425 ~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l--~l~~eVi~yLa~r~~rnvR~LegaL~rL  492 (617)
T PRK14086        425 VTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQL--NAPPEVLEFIASRISRNIRELEGALIRV  492 (617)
T ss_pred             hhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence                  2222345678899999999999999987743332  3346889999999998887776655444

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.75  E-value=7.7e-07  Score=86.17  Aligned_cols=189  Identities=16%  Similarity=0.107  Sum_probs=110.9

Q ss_pred             cccCcccccchhHH--HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRIE--EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el~--~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~  120 (398)
                      .-+..++|-...+.  ...++....  +....++|+|++|+|||+|+..+++.+.+..+  .+.|++    .      .+
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~--~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~----~------~~  170 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNP--GRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----S------EK  170 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----H------HH
Confidence            45555668666543  233333322  23567999999999999999999998766543  345544    1      23


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----hHHHHHccCCC-CCCCcEEEEEeC-ChhHH
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----QIEFLIGNLDW-FASGSRILITAR-DKQAL  194 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----~~~~l~~~l~~-~~~~~~iliTsR-~~~~~  194 (398)
                      +...+...+...         ....+........-+|+|||++...    .-..+...+.. ...+..+|+|+. .+...
T Consensus       171 f~~~~~~~~~~~---------~~~~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l  241 (440)
T PRK14088        171 FLNDLVDSMKEG---------KLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKL  241 (440)
T ss_pred             HHHHHHHHHhcc---------cHHHHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHH
Confidence            334443333211         1122233333345589999996321    11223322221 123446888774 33221


Q ss_pred             H--------hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          195 I--------NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       195 ~--------~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      .        .+.....+.+++.+.+.-.+++.+.+....  ....++.+..|++.+.|+...+.-+...+
T Consensus       242 ~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~--~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l  309 (440)
T PRK14088        242 SEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEH--GELPEEVLNFVAENVDDNLRRLRGAIIKL  309 (440)
T ss_pred             HHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHhccccCHHHHHHHHHHH
Confidence            1        123456788999999999999988763322  22346889999999999888777655444

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.72  E-value=1.8e-07  Score=97.60  Aligned_cols=175  Identities=15%  Similarity=0.130  Sum_probs=96.9

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-C-----cceEEEeechhhhhcCCHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-F-----EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f-----~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .+++||+++++++.++|...   ..+-++++|++|+|||++|..++..+... -     ...+|..+....         
T Consensus       179 ~~~igr~~ei~~~~~~L~r~---~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l---------  246 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRR---TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLL---------  246 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccc---ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHH---------
Confidence            46899999999999999763   34566799999999999999999986432 1     133443321111         


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH---------hHHH-HHccCCCCCCCcEEEEEeCCh
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR---------QIEF-LIGNLDWFASGSRILITARDK  191 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~---------~~~~-l~~~l~~~~~~~~iliTsR~~  191 (398)
                      +.       ......+.+......+.......+++|+||+++...         +... |.+.+.  ....++|.+|..+
T Consensus       247 ~a-------g~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~~  317 (821)
T CHL00095        247 LA-------GTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTLD  317 (821)
T ss_pred             hc-------cCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCHH
Confidence            10       000000111112222222223568899999995221         1122 222222  2345566666554


Q ss_pred             hHH-------HhcCCCeeEEcCCCChhhhHHHHHHhhc--CCCCCCcchHHHHHHHHHHcC
Q 015918          192 QAL-------INCGVNKIYQIKELVHVDALKLLNQCAF--GRDHPDASYIELTHEAIKYAQ  243 (398)
Q Consensus       192 ~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~--~~~~~~~~~~~~~~~i~~~~~  243 (398)
                      +..       ........+.++..+.++...+++....  .........++....+++.+.
T Consensus       318 ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~  378 (821)
T CHL00095        318 EYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSD  378 (821)
T ss_pred             HHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhh
Confidence            331       1223567788999999998888764320  000111123455666666654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=3.4e-06  Score=84.70  Aligned_cols=183  Identities=15%  Similarity=0.106  Sum_probs=110.6

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc----------------------ce
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE----------------------GS  103 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~----------------------~~  103 (398)
                      .-..++|.+...+.|.+++..+  .-...++++|+.|+||||+|+.+++.+.....                      .+
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~--~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATN--KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC--CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            3467999999999999999763  23456889999999999999999987532110                      00


Q ss_pred             EEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCC
Q 015918          104 YFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASG  181 (398)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~  181 (398)
                      ..+.    ........+ +.++..++...               . ..+.+-++|||+++..  .....|...+......
T Consensus        93 ~~ld----~~~~~~vd~-Ir~li~~~~~~---------------P-~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~  151 (614)
T PRK14971         93 HELD----AASNNSVDD-IRNLIEQVRIP---------------P-QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSY  151 (614)
T ss_pred             EEec----ccccCCHHH-HHHHHHHHhhC---------------c-ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCC
Confidence            0000    000011111 11111111000               0 1234448899999743  4466666666554455


Q ss_pred             cEEEEEe-CChhHHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          182 SRILITA-RDKQALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       182 ~~iliTs-R~~~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +.+|++| ....+.. ..+.+..+++.+++.++....+...+...+.  ....+.+..+++.++|...-+....
T Consensus       152 tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi--~i~~~al~~La~~s~gdlr~al~~L  223 (614)
T PRK14971        152 AIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI--TAEPEALNVIAQKADGGMRDALSIF  223 (614)
T ss_pred             eEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5555544 3333333 2346778999999999999999876633222  2234668899999999887554443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.72  E-value=4.9e-06  Score=82.91  Aligned_cols=196  Identities=14%  Similarity=0.072  Sum_probs=111.2

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-..++|.+...+.|.+++....  -.+..+++||+|+||||+|+.+++.+........-        ++... ..+..
T Consensus        13 ~~f~~viGq~~v~~~L~~~i~~~~--~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~--------pC~~C-~~C~~   81 (559)
T PRK05563         13 QTFEDVVGQEHITKTLKNAIKQGK--ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGE--------PCNEC-EICKA   81 (559)
T ss_pred             CcHHhccCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC--------CCCcc-HHHHH
Confidence            345689999999999999997632  35667889999999999999999875322100000        00000 01111


Q ss_pred             HHHHHhcCC-CCCCCCccchH---HHHHh-----hCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-h
Q 015918          125 LLSTLLNDG-NMNKFPNIGLN---FQSKR-----LTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-Q  192 (398)
Q Consensus       125 i~~~l~~~~-~~~~~~~~~~~---~l~~~-----l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~  192 (398)
                      +.......- ..+......++   .+...     ..++.-++|||+++..  .....|+..+......+.+|++|... .
T Consensus        82 i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~k  161 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHK  161 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhh
Confidence            111000000 00000001111   11111     1345668999999854  44666666555434454555544333 2


Q ss_pred             HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          193 ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       193 ~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +.. ..+.+..+.+.+++.++..+.+...+...+.  ....+.+..+++.++|.+..+....
T Consensus       162 i~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi--~i~~~al~~ia~~s~G~~R~al~~L  221 (559)
T PRK05563        162 IPATILSRCQRFDFKRISVEDIVERLKYILDKEGI--EYEDEALRLIARAAEGGMRDALSIL  221 (559)
T ss_pred             CcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            222 2345678899999999999998876632222  2234668889999999887554333

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.71  E-value=2.6e-07  Score=87.62  Aligned_cols=183  Identities=15%  Similarity=0.183  Sum_probs=102.9

Q ss_pred             ccCcccccchhHHHHHHHhccCC----------CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL----------TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~----------~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      ....+.|++.++++|.+.+....          -..++.++|+||+|+|||++|+.+++.+...|     +...      
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~-----~~v~------  188 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF-----IRVV------  188 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCE-----Eecc------
Confidence            44578999999999998774211          02356699999999999999999998865543     2210      


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCCC--
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLDW--  177 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~--  177 (398)
                        ..++.......         ........+...-...+.+|+||+++...                .+..++..+..  
T Consensus       189 --~~~l~~~~~g~---------~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       189 --GSELVRKYIGE---------GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             --hHHHHHHhhhH---------HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence              01111100000         00001111222223467899999986421                12222222211  


Q ss_pred             CCCCcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHH
Q 015918          178 FASGSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKI  251 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~  251 (398)
                      ...+..||+||....... ..    .....+.++..+.++..+++..+.........   -....+++.+.|.. ..|..
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~---~~~~~la~~t~g~sg~dl~~  334 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED---VDLEAIAKMTEGASGADLKA  334 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc---CCHHHHHHHcCCCCHHHHHH
Confidence            124567777776542211 11    22457889999999999999887644332221   11567778887653 34444


Q ss_pred             HH
Q 015918          252 LG  253 (398)
Q Consensus       252 l~  253 (398)
                      ++
T Consensus       335 l~  336 (364)
T TIGR01242       335 IC  336 (364)
T ss_pred             HH
Confidence            43

Many proteins may score above the trusted cutoff because an internal

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=5.5e-06  Score=83.25  Aligned_cols=197  Identities=14%  Similarity=0.074  Sum_probs=111.4

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE-EEeechhhhhcCCHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY-FAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~~~~~  124 (398)
                      .-..++|.+...+.|..++....  -.+.++++|++|+||||+|+.+++.+........ ...       +. .-..+..
T Consensus        14 ~f~~liGq~~i~~~L~~~l~~~r--l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~-------Cg-~C~~C~~   83 (620)
T PRK14948         14 RFDELVGQEAIATTLKNALISNR--IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEP-------CG-KCELCRA   83 (620)
T ss_pred             cHhhccChHHHHHHHHHHHHcCC--CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCC-------Cc-ccHHHHH
Confidence            34578999999999999987632  3467889999999999999999998643211000 000       00 0011111


Q ss_pred             HHHHHhcCC-CCCCCCccchHHHHH---hh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-h
Q 015918          125 LLSTLLNDG-NMNKFPNIGLNFQSK---RL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-Q  192 (398)
Q Consensus       125 i~~~l~~~~-~~~~~~~~~~~~l~~---~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~  192 (398)
                      +.......- ..+......++.++.   .+     .++.-++|||+++..  .....|+..+........+|++|.+. .
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~  163 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQR  163 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhh
Confidence            111110000 000000111111111   11     234558999999854  44666666665444455555555433 2


Q ss_pred             HHH-hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          193 ALI-NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       193 ~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      +.. ..+.+..+.+.+++.++....+...+.....  ....+.+..+++.++|.+..+..+..
T Consensus       164 llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi--~is~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        164 VLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESI--EIEPEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            222 2345678889999999998888766532111  12346688999999998876654443

>PRK06620 hypothetical protein; Validated

Probab=98.67  E-value=6.5e-07  Score=78.00  Aligned_cols=169  Identities=11%  Similarity=-0.019  Sum_probs=98.7

Q ss_pred             cccCcccccchh--HHHHHHHhccCCCCC-ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSR--IEEILSLLGVGLTMD-TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~e--l~~l~~~L~~~~~~~-~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..+..++|....  ...+.++......+. .+.+.|+||+|+|||+|+..+++...     ..++..   . .  .    
T Consensus        14 tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~-----~~~~~~---~-~--~----   78 (214)
T PRK06620         14 HPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSN-----AYIIKD---I-F--F----   78 (214)
T ss_pred             CchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccC-----CEEcch---h-h--h----
Confidence            556677777443  333444443221011 26799999999999999998776542     122220   0 0  0    


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCC-CCCcEEEEEeCChhH-------
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWF-ASGSRILITARDKQA-------  193 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~-~~~~~iliTsR~~~~-------  193 (398)
                      ..                        .... ..-+++|||++..+. ..+...+... ..+..+|+|++.++.       
T Consensus        79 ~~------------------------~~~~-~~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L  132 (214)
T PRK06620         79 NE------------------------EILE-KYNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDL  132 (214)
T ss_pred             ch------------------------hHHh-cCCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHH
Confidence            00                        0011 223788999975432 2232222111 345678888875532       


Q ss_pred             HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          194 LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       194 ~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ...+.....+++++++.++...++.+.+....  ....+++.+.+++++.|....+.-+...+
T Consensus       133 ~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~--l~l~~ev~~~L~~~~~~d~r~l~~~l~~l  193 (214)
T PRK06620        133 SSRIKSVLSILLNSPDDELIKILIFKHFSISS--VTISRQIIDFLLVNLPREYSKIIEILENI  193 (214)
T ss_pred             HHHHhCCceEeeCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            12223556899999999998888887763222  22346889999999988877765554443

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.66  E-value=7.9e-07  Score=92.85  Aligned_cols=148  Identities=15%  Similarity=0.119  Sum_probs=86.2

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhh----cCC
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEE----TGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~----~~~  117 (398)
                      .+++||+.+++++.+.|..   .....++++|++|+|||++|..++..+....      ...+|.........    ...
T Consensus       178 ~~vigr~~ei~~~i~iL~r---~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~  254 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQR---RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGE  254 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhc---CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhh
Confidence            4699999999999999976   3345677999999999999999999865431      12333321211100    011


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCChH----------hHHHHHccCCCCCCCcEEEE
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHPR----------QIEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~~----------~~~~l~~~l~~~~~~~~ili  186 (398)
                      +.+-+                    ...+.... ...+++|+||+++...          .-+.+.+.+.  ....++|-
T Consensus       255 ~e~~l--------------------k~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~--~g~l~~Ig  312 (857)
T PRK10865        255 FEERL--------------------KGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVG  312 (857)
T ss_pred             hHHHH--------------------HHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhh--cCCCeEEE
Confidence            11111                    11222111 2468899999996432          1222333332  33455666


Q ss_pred             EeCChhHH-------HhcCCCeeEEcCCCChhhhHHHHHHh
Q 015918          187 TARDKQAL-------INCGVNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       187 TsR~~~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      +|..++..       ...+....+.++..+.++...+++..
T Consensus       313 aTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l  353 (857)
T PRK10865        313 ATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGL  353 (857)
T ss_pred             cCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHH
Confidence            55544331       11234456777777888888887654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.65  E-value=7e-07  Score=85.21  Aligned_cols=182  Identities=14%  Similarity=0.168  Sum_probs=100.5

Q ss_pred             cCcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           47 ENKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      ...+.|++.+++++.+.+...          ....++.++|+||+|+|||++|+.+++.....|   +.+.    .    
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~---i~v~----~----  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF---IRVV----G----  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCE---EEee----h----
Confidence            346889999999999876321          113456799999999999999999998865432   1111    0    


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------Hh---HHHHHccCCC--C
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQ---IEFLIGNLDW--F  178 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~---~~~l~~~l~~--~  178 (398)
                        .++..    ....     .........+...-...+.+|+||+++..             ..   +..++..+..  .
T Consensus       199 --~~l~~----~~~g-----~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~  267 (389)
T PRK03992        199 --SELVQ----KFIG-----EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDP  267 (389)
T ss_pred             --HHHhH----hhcc-----chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCC
Confidence              11110    0000     00000111122222356789999999643             11   1122222211  1


Q ss_pred             CCCcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHHH
Q 015918          179 ASGSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKIL  252 (398)
Q Consensus       179 ~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~l  252 (398)
                      ..+..||.||....... .+    .....+.+++.+.++-.+++..+.........   -....+++.+.|. +.-|..+
T Consensus       268 ~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~---~~~~~la~~t~g~sgadl~~l  344 (389)
T PRK03992        268 RGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD---VDLEELAELTEGASGADLKAI  344 (389)
T ss_pred             CCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc---CCHHHHHHHcCCCCHHHHHHH
Confidence            23556777776542211 11    23457899999999999999887643322221   1156677777653 3444444


Q ss_pred             H
Q 015918          253 G  253 (398)
Q Consensus       253 ~  253 (398)
                      +
T Consensus       345 ~  345 (389)
T PRK03992        345 C  345 (389)
T ss_pred             H
Confidence            3

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.65  E-value=6.4e-07  Score=80.91  Aligned_cols=133  Identities=10%  Similarity=0.052  Sum_probs=71.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      +....++++||+|+||||+|+.+++.+....  ....++...    .    .++.    .....     .......+.+.
T Consensus        40 ~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~----~----~~l~----~~~~g-----~~~~~~~~~~~  102 (261)
T TIGR02881        40 KQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVE----R----ADLV----GEYIG-----HTAQKTREVIK  102 (261)
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEec----H----HHhh----hhhcc-----chHHHHHHHHH
Confidence            3456788999999999999999998753221  112222210    0    1111    11100     00000111121


Q ss_pred             HhhCCceEEEEEeCCCCh----------HhHHHHHccCCCCCCCcEEEEEeCChhHHH-------hc-CCCeeEEcCCCC
Q 015918          148 KRLTRKKVLIVFDDVNHP----------RQIEFLIGNLDWFASGSRILITARDKQALI-------NC-GVNKIYQIKELV  209 (398)
Q Consensus       148 ~~l~~~~~LlvlDd~~~~----------~~~~~l~~~l~~~~~~~~iliTsR~~~~~~-------~~-~~~~~~~l~~L~  209 (398)
                      ..   ...+|+||+++..          +.++.+...+........+++++.......       .. .....+.+++++
T Consensus       103 ~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~  179 (261)
T TIGR02881       103 KA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYT  179 (261)
T ss_pred             hc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCC
Confidence            11   2348999999742          234445554443334445555554322211       11 223568999999


Q ss_pred             hhhhHHHHHHhhc
Q 015918          210 HVDALKLLNQCAF  222 (398)
Q Consensus       210 ~~e~~~Ll~~~~~  222 (398)
                      .++..+++.+.+.
T Consensus       180 ~~el~~Il~~~~~  192 (261)
T TIGR02881       180 VEELMEIAERMVK  192 (261)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987763

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.

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

Probab=98.65  E-value=2.7e-06  Score=73.72  Aligned_cols=179  Identities=15%  Similarity=0.089  Sum_probs=107.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .+.+++.|+|+-|+|||.+++.+...+.++-.+++++     ..+..+...+...++.++.....  .........+.+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i-----~~~~~s~~~~~~ai~~~l~~~p~--~~~~~~~e~~~~~  121 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVI-----DKPTLSDATLLEAIVADLESQPK--VNVNAVLEQIDRE  121 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEe-----cCcchhHHHHHHHHHHHhccCcc--chhHHHHHHHHHH
Confidence            5667999999999999999996666665544334333     23355667777777777766221  1111122222222


Q ss_pred             -----hCCce-EEEEEeCCCCh--Hh---HHHHHccCCCCCCCcEEEEEeCChhHHH---------hcCCCee-EEcCCC
Q 015918          150 -----LTRKK-VLIVFDDVNHP--RQ---IEFLIGNLDWFASGSRILITARDKQALI---------NCGVNKI-YQIKEL  208 (398)
Q Consensus       150 -----l~~~~-~LlvlDd~~~~--~~---~~~l~~~l~~~~~~~~iliTsR~~~~~~---------~~~~~~~-~~l~~L  208 (398)
                           .++++ ..+++|+++..  +.   ++.|...-...+....|+.... +...+         ....... |+++|+
T Consensus       122 L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gq-p~L~~~lr~~~l~e~~~R~~ir~~l~P~  200 (269)
T COG3267         122 LAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQ-PKLRPRLRLPVLRELEQRIDIRIELPPL  200 (269)
T ss_pred             HHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCC-cccchhhchHHHHhhhheEEEEEecCCc
Confidence                 24455 99999999642  22   3333222222222223333321 11111         1112333 899999


Q ss_pred             ChhhhHHHHHHhhcCCC-CCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          209 VHVDALKLLNQCAFGRD-HPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       209 ~~~e~~~Ll~~~~~~~~-~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      +.+++..+++.++.+.. ..+-..++....++..+.|.|..|+.++...
T Consensus       201 ~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~A  249 (269)
T COG3267         201 TEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLA  249 (269)
T ss_pred             ChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHH
Confidence            99999999988774433 2333456788999999999999999887643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.64  E-value=7.4e-07  Score=93.38  Aligned_cols=152  Identities=14%  Similarity=0.111  Sum_probs=87.4

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhhcCCHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..++||+.+++++.+.|..   .....++++|++|+|||+++..+++++....      ...+|.......         
T Consensus       173 ~~~igr~~ei~~~~~~l~r---~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l---------  240 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSR---RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL---------  240 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhc---CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHH---------
Confidence            4699999999999999976   3345667899999999999999999865432      223333211111         


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCChH----------hHHHHHccCCCCCCCcEEEEEeCC
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHPR----------QIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~~----------~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      ..       ...............+.... .+.+++|+||+++...          ....+.+.+.  .....+|.+|..
T Consensus       241 ~a-------~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaTt~  311 (852)
T TIGR03346       241 IA-------GAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGATTL  311 (852)
T ss_pred             hh-------cchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeCcH
Confidence            00       00000011111112222221 2468999999996432          1122222221  234455555554


Q ss_pred             hhHHH-------hcCCCeeEEcCCCChhhhHHHHHHh
Q 015918          191 KQALI-------NCGVNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       191 ~~~~~-------~~~~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      ++...       ..+....+.++..+.++...++...
T Consensus       312 ~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       312 DEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             HHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            43311       1235567889999999999988754

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.64  E-value=4.7e-06  Score=76.90  Aligned_cols=193  Identities=15%  Similarity=0.097  Sum_probs=111.4

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc---------------cCcceEEEeechhh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR---------------RFEGSYFAHNVREA  112 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~---------------~f~~~~~~~~~~~~  112 (398)
                      .+++|.+...+.+.+.+..+  .-.+..+++|+.|+||+++|..+++.+-.               .++...|+......
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~--rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQN--RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            46899999999999999763  23578999999999999999999988532               23444554311000


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCCCcc---chHHHHHhhC-----CceEEEEEeCCCC--hHhHHHHHccCCCCCCCc
Q 015918          113 EETGKLADLRKELLSTLLNDGNMNKFPNI---GLNFQSKRLT-----RKKVLIVFDDVNH--PRQIEFLIGNLDWFASGS  182 (398)
Q Consensus       113 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~---~~~~l~~~l~-----~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~  182 (398)
                      ... ...   .+.....+....  .....   .+..+...+.     +.+-++|||+++.  ......++..+-..+ .+
T Consensus        82 ~g~-~~~---~~~~~~~~~~~~--~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~  154 (314)
T PRK07399         82 QGK-LIT---ASEAEEAGLKRK--APPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NG  154 (314)
T ss_pred             ccc-ccc---hhhhhhcccccc--ccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CC
Confidence            000 000   000000000000  11111   2223333332     3456999999974  344556666665444 44


Q ss_pred             EEEEEeCC-hhHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          183 RILITARD-KQALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       183 ~iliTsR~-~~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      .+|++|.+ ..+.+. .+.+..+.+.+++.++..+.+...... . ..   ......++..++|.|.....+..
T Consensus       155 ~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~-~-~~---~~~~~~l~~~a~Gs~~~al~~l~  223 (314)
T PRK07399        155 TLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDE-E-IL---NINFPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             eEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcc-c-cc---hhHHHHHHHHcCCCHHHHHHHHH
Confidence            45544433 333332 346788999999999999999876421 1 11   11146788999999976654433

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.63  E-value=1.7e-06  Score=80.58  Aligned_cols=177  Identities=14%  Similarity=0.135  Sum_probs=97.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.+++|.+...+.+..++...  ..+..++++|++|+|||++++.+++.....   ..++.    .+. .... ....
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~~--~~~~~lll~G~~G~GKT~la~~l~~~~~~~---~~~i~----~~~-~~~~-~i~~   86 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKKG--RIPNMLLHSPSPGTGKTTVAKALCNEVGAE---VLFVN----GSD-CRID-FVRN   86 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcC--CCCeEEEeeCcCCCCHHHHHHHHHHHhCcc---ceEec----cCc-ccHH-HHHH
Confidence            45578899999999999998753  345677779999999999999999876332   22333    111 1111 1111


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--H-hHHHHHccCCCCCCCcEEEEEeCChh-H-HHhcCC
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--R-QIEFLIGNLDWFASGSRILITARDKQ-A-LINCGV  199 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~-~~~~l~~~l~~~~~~~~iliTsR~~~-~-~~~~~~  199 (398)
                      .+..+.....               ....+-+||||+++..  . ....+...+.....++.+|+|+.... . ....+.
T Consensus        87 ~l~~~~~~~~---------------~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR  151 (316)
T PHA02544         87 RLTRFASTVS---------------LTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSR  151 (316)
T ss_pred             HHHHHHHhhc---------------ccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhh
Confidence            1111111000               1134558999999754  2 22223222333346677888886542 1 111234


Q ss_pred             CeeEEcCCCChhhhHHHHHHhhcC-----CCCCCcchHHHHHHHHHHcCCChH
Q 015918          200 NKIYQIKELVHVDALKLLNQCAFG-----RDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       200 ~~~~~l~~L~~~e~~~Ll~~~~~~-----~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                      ...+.++..+.++..+++......     .....+...+....+++.+.|.-.
T Consensus       152 ~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r  204 (316)
T PHA02544        152 CRVIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFR  204 (316)
T ss_pred             ceEEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHH
Confidence            567788788888877665432100     001111223445666666665443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.63  E-value=5.1e-06  Score=80.35  Aligned_cols=184  Identities=13%  Similarity=0.066  Sum_probs=106.6

Q ss_pred             cccCcccccchhHH--HHHHHhccCC---CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHH
Q 015918           45 ETENKLVGVDSRIE--EILSLLGVGL---TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        45 ~~~~~fvGR~~el~--~l~~~L~~~~---~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  119 (398)
                      .-+..++|-...+.  .+.++.....   ......+.|+|++|+|||+|+..+++.+......+.|+.    .      .
T Consensus       109 tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~----~------~  178 (445)
T PRK12422        109 TFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR----S------E  178 (445)
T ss_pred             cccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee----H------H
Confidence            55556678877754  3444432111   023467899999999999999999998766555556655    1      2


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----HhHHHHHccCCC-CCCCcEEEEEeCC-hhH
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----RQIEFLIGNLDW-FASGSRILITARD-KQA  193 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----~~~~~l~~~l~~-~~~~~~iliTsR~-~~~  193 (398)
                      .+...+...+...         ..+.+...... .-+|+|||++..    ...+.+...+.. ...+..+|+||.. +..
T Consensus       179 ~f~~~~~~~l~~~---------~~~~f~~~~~~-~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~  248 (445)
T PRK12422        179 LFTEHLVSAIRSG---------EMQRFRQFYRN-VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQD  248 (445)
T ss_pred             HHHHHHHHHHhcc---------hHHHHHHHccc-CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHH
Confidence            2222333332210         11223333333 348889999532    112233332221 1234567777754 321


Q ss_pred             H--------HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHH
Q 015918          194 L--------INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALK  250 (398)
Q Consensus       194 ~--------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~  250 (398)
                      .        ..+..+..+.+.+++.++...++.+.+....  ....++..+.++..+.++-..+.
T Consensus       249 l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~--~~l~~evl~~la~~~~~dir~L~  311 (445)
T PRK12422        249 LKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS--IRIEETALDFLIEALSSNVKSLL  311 (445)
T ss_pred             HhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHH
Confidence            1        1123457889999999999999988763322  23446778888888887764443

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

Probab=98.60  E-value=6.3e-07  Score=91.64  Aligned_cols=152  Identities=14%  Similarity=0.163  Sum_probs=86.9

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhhhcCCHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .+++||+.+++++.+.|...   ....++++|++|+|||++|+.+++.+....      .+.+|..         ++..+
T Consensus       186 ~~liGR~~ei~~~i~iL~r~---~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l---------~~~~l  253 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRR---RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL---------DIGSL  253 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhcc---CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec---------cHHHH
Confidence            46999999999999998763   334567899999999999999998753331      2233322         11111


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------HhHHH-HHccCCCCCCCcEEEEEeCC
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------RQIEF-LIGNLDWFASGSRILITARD  190 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------~~~~~-l~~~l~~~~~~~~iliTsR~  190 (398)
                      +    .   ........+......+...-...+.+|+||+++..          .+... +.+.+.  ....++|-+|..
T Consensus       254 l----a---G~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgATt~  324 (758)
T PRK11034        254 L----A---GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTY  324 (758)
T ss_pred             h----c---ccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecCCh
Confidence            1    0   00000011111111222222345779999999632          11211 223322  234455555544


Q ss_pred             hhHH-------HhcCCCeeEEcCCCChhhhHHHHHHh
Q 015918          191 KQAL-------INCGVNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       191 ~~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      ++..       ...+....+.+++.+.+++.+++...
T Consensus       325 ~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            4321       12235578999999999999999864

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

Probab=98.57  E-value=3.5e-06  Score=74.74  Aligned_cols=195  Identities=16%  Similarity=0.094  Sum_probs=112.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc--cCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR--RFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+++|.+..++.|...+..   ...+..+.+||+|.|||+.|+.+++.+-.  -|++.+.-.+....+...-.+.-.
T Consensus        33 kt~de~~gQe~vV~~L~~a~~~---~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki  109 (346)
T KOG0989|consen   33 KTFDELAGQEHVVQVLKNALLR---RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI  109 (346)
T ss_pred             CcHHhhcchHHHHHHHHHHHhh---cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh
Confidence            4556799999999999999987   35678889999999999999999988543  244333311100000000000000


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCce-EEEEEeCCCCh--HhHHHHHccCCCCCCCcE-EEEEeCChh-HHHhc
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKK-VLIVFDDVNHP--RQIEFLIGNLDWFASGSR-ILITARDKQ-ALINC  197 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~-~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~-iliTsR~~~-~~~~~  197 (398)
                      .. +..+......          .... .-++ -+||||+++..  +.|..+...+...+...+ |+||+.-.. +.+..
T Consensus       110 k~-fakl~~~~~~----------~~~~-~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~  177 (346)
T KOG0989|consen  110 KN-FAKLTVLLKR----------SDGY-PCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLV  177 (346)
T ss_pred             cC-HHHHhhcccc----------ccCC-CCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHH
Confidence            00 0111100000          0000 0122 48999999854  345555555544344444 445543221 22223


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      +...-+..++|..++..+-++..+...+  .....+..+.|++.++|--.-...+.+.+
T Consensus       178 SRC~KfrFk~L~d~~iv~rL~~Ia~~E~--v~~d~~al~~I~~~S~GdLR~Ait~Lqsl  234 (346)
T KOG0989|consen  178 SRCQKFRFKKLKDEDIVDRLEKIASKEG--VDIDDDALKLIAKISDGDLRRAITTLQSL  234 (346)
T ss_pred             hhHHHhcCCCcchHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHcCCcHHHHHHHHHHh
Confidence            4556788999999999988888763322  23446789999999998766544444443

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

Probab=98.54  E-value=2.5e-06  Score=77.77  Aligned_cols=166  Identities=19%  Similarity=0.232  Sum_probs=104.2

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      ..+.|.+|+.++..+...+......-+..+.|+|.+|+|||.+++++.+.....   .+|++    +-...+...+...+
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~---~vw~n----~~ecft~~~lle~I   76 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE---NVWLN----CVECFTYAILLEKI   76 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc---ceeee----hHHhccHHHHHHHH
Confidence            457799999999999999987652234556999999999999999999987444   68988    66677888888888


Q ss_pred             HHHHh-cCCCCCCCCc--c----chHHHHH--hhC--CceEEEEEeCCCChHhHH-----H---HHccCCCCCCCcEEEE
Q 015918          126 LSTLL-NDGNMNKFPN--I----GLNFQSK--RLT--RKKVLIVFDDVNHPRQIE-----F---LIGNLDWFASGSRILI  186 (398)
Q Consensus       126 ~~~l~-~~~~~~~~~~--~----~~~~l~~--~l~--~~~~LlvlDd~~~~~~~~-----~---l~~~l~~~~~~~~ili  186 (398)
                      +.... ....++....  .    ....+.+  ...  ++.++|||||++...+.+     .   +...++  .+...|++
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~--~~~i~iil  154 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLN--EPTIVIIL  154 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC--CCceEEEE
Confidence            88774 2222211111  1    1111111  112  358999999997543322     2   222222  23343333


Q ss_pred             EeCChhHHHh--cC--CCeeEEcCCCChhhhHHHHHHh
Q 015918          187 TARDKQALIN--CG--VNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       187 TsR~~~~~~~--~~--~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      ..-..+-...  .+  ....+..+.-+.+|...++.+-
T Consensus       155 s~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  155 SAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             eccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            3322222221  12  2345678889999999998654

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

Probab=98.53  E-value=7.3e-06  Score=73.61  Aligned_cols=204  Identities=13%  Similarity=0.064  Sum_probs=118.0

Q ss_pred             ccCcccccch---hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc------ceEEEeechhhhhcC
Q 015918           46 TENKLVGVDS---RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE------GSYFAHNVREAEETG  116 (398)
Q Consensus        46 ~~~~fvGR~~---el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~------~~~~~~~~~~~~~~~  116 (398)
                      ..+.+||-..   .++.|.+.+..+...+.+.+.|+|++|+|||++++++++.+...++      -++++.    ..+.+
T Consensus        32 ~~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq----~P~~p  107 (302)
T PF05621_consen   32 RADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ----MPPEP  107 (302)
T ss_pred             hcCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe----cCCCC
Confidence            3455666654   4455666666554467788999999999999999999987543331      133333    55678


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC-ceEEEEEeCCCCh-----HhHHHHH---ccCCCCCCCcEEEEE
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR-KKVLIVFDDVNHP-----RQIEFLI---GNLDWFASGSRILIT  187 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~-~~~LlvlDd~~~~-----~~~~~l~---~~l~~~~~~~~iliT  187 (398)
                      +...+...++..++.................+.++. +.=+||||++++.     ..-+.++   ..+.+.-.-+.|.+-
T Consensus       108 ~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vG  187 (302)
T PF05621_consen  108 DERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVG  187 (302)
T ss_pred             ChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEec
Confidence            889999999999987765433333333334444443 3449999999752     1222222   222211223334444


Q ss_pred             eCChhHH-----HhcCCCeeEEcCCCChh-hhHHHHHHhh--cC-CCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          188 ARDKQAL-----INCGVNKIYQIKELVHV-DALKLLNQCA--FG-RDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       188 sR~~~~~-----~~~~~~~~~~l~~L~~~-e~~~Ll~~~~--~~-~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      |++-...     ...+....+.++++..+ +...|+...-  .+ .....-...+++..++..++|+.=-+..+.
T Consensus       188 t~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll  262 (302)
T PF05621_consen  188 TREAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLL  262 (302)
T ss_pred             cHHHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHH
Confidence            4322111     11135567788887654 4445543321  11 111112346788999999999886665443

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

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.52  E-value=6.2e-06  Score=76.56  Aligned_cols=93  Identities=13%  Similarity=0.150  Sum_probs=62.0

Q ss_pred             eEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCc
Q 015918          154 KVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDA  229 (398)
Q Consensus       154 ~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~  229 (398)
                      +-++|||+++  +......++..+-+.+.++.+|++|.+. .+.+. .+.+..+.+.+++.+++.+.+.... . ...  
T Consensus       107 ~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~-~~~--  182 (328)
T PRK05707        107 RKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-P-ESD--  182 (328)
T ss_pred             CeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-c-cCC--
Confidence            3356789997  4455667777666555667777777655 33322 3466789999999999999997653 1 111  


Q ss_pred             chHHHHHHHHHHcCCChHHHHHH
Q 015918          230 SYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       230 ~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                        .+.+..++..++|.|.....+
T Consensus       183 --~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        183 --ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             --hHHHHHHHHHcCCCHHHHHHH
Confidence              233667788999999755443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.51  E-value=3.1e-06  Score=85.23  Aligned_cols=49  Identities=22%  Similarity=0.316  Sum_probs=40.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..-+.++|++..++.+.+.+..   +....++|+|++|+||||||+.+.+..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~---~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVAS---PFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhc---CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3446799999999999887754   445679999999999999999998765

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.

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

Probab=98.49  E-value=1.1e-05  Score=77.07  Aligned_cols=239  Identities=17%  Similarity=0.107  Sum_probs=132.0

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhc
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLN  131 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~  131 (398)
                      .|..-+.++...+..    .+.+++|.||.++||||+++.+.+...+.   .+++...........+    .+.+...  
T Consensus        21 ~~~~~~~~l~~~~~~----~~~i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l----~d~~~~~--   87 (398)
T COG1373          21 ERRKLLPRLIKKLDL----RPFIILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIEL----LDLLRAY--   87 (398)
T ss_pred             hHHhhhHHHHhhccc----CCcEEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhH----HHHHHHH--
Confidence            333445555555543    22299999999999999997777766555   5555421111111111    1111111  


Q ss_pred             CCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHh------cCCCeeEEc
Q 015918          132 DGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALIN------CGVNKIYQI  205 (398)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~------~~~~~~~~l  205 (398)
                                    .... ..++..|+||+++....|......+....+. ++++|+.+......      .+....+.+
T Consensus        88 --------------~~~~-~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l  151 (398)
T COG1373          88 --------------IELK-EREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLEL  151 (398)
T ss_pred             --------------HHhh-ccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEE
Confidence                          1111 1177899999999999988888777655555 78888766533221      235678899


Q ss_pred             CCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHHHhccCChhhHHHHHHH
Q 015918          206 KELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKI  285 (398)
Q Consensus       206 ~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~~l~~~~~~~v~~~l~~  285 (398)
                      .|||-.|-..+-..     ....... +..-.-.-.+||.|.++..-...-.      ......       ..+..-+..
T Consensus       152 ~PlSF~Efl~~~~~-----~~~~~~~-~~~f~~Yl~~GGfP~~v~~~~~~~~------~~~~~~-------~~~~~Di~~  212 (398)
T COG1373         152 YPLSFREFLKLKGE-----EIEPSKL-ELLFEKYLETGGFPESVKADLSEKK------LKEYLD-------TILKRDIIE  212 (398)
T ss_pred             CCCCHHHHHhhccc-----ccchhHH-HHHHHHHHHhCCCcHHHhCcchhhH------HHHHHH-------HHHHHHHHH
Confidence            99998888765430     0000011 1122333457899987732211100      111110       111111111


Q ss_pred             hHhcCc-hHHHHHHHHhhcCcCC-cChHHHHHHH-HhcCccccccHHHHhhccCee
Q 015918          286 SYDGLD-DKEKNIFLDIACFLVG-EDRDIVTKYL-NACEFFATSGIEVLVDKSLIT  338 (398)
Q Consensus       286 ~~~~L~-~~~~~~l~~la~~~~~-~~~~~l~~~~-~~~~~~~~~~l~~L~~~~Ll~  338 (398)
                      .....+ ...++++..++...+. ++...+...+ +.+.......++.|.+..++.
T Consensus       213 ~~~~~~~~~~k~i~~~l~~~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~  268 (398)
T COG1373         213 RGKIENADLMKRILRFLASNIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLF  268 (398)
T ss_pred             HcCcccHHHHHHHHHHHHhhcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheE
Confidence            111111 3556666555555444 8999998888 455555667788888888776

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.48  E-value=4.3e-06  Score=81.43  Aligned_cols=157  Identities=17%  Similarity=0.236  Sum_probs=87.9

Q ss_pred             CcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechh-
Q 015918           48 NKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVRE-  111 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~-  111 (398)
                      ..+.|.+.+++++.+.+...          .-..++-++++||+|+|||++|+.+++.+...+     ....|+..... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e  261 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE  261 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchh
Confidence            45788999999998876310          113456799999999999999999999876542     22334331100 


Q ss_pred             hhhc--CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHH-hhCCceEEEEEeCCCChH---------h-----HHHHHcc
Q 015918          112 AEET--GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK-RLTRKKVLIVFDDVNHPR---------Q-----IEFLIGN  174 (398)
Q Consensus       112 ~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlvlDd~~~~~---------~-----~~~l~~~  174 (398)
                      ....  ......+..+                 .+.... ...+++++|+||+++..-         +     +..|+..
T Consensus       262 Ll~kyvGete~~ir~i-----------------F~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       262 LLNKYVGETERQIRLI-----------------FQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             hcccccchHHHHHHHH-----------------HHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            0000  0000011111                 111111 123578999999996321         1     1233333


Q ss_pred             CCCC--CCCcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhh
Q 015918          175 LDWF--ASGSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       175 l~~~--~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +...  ..+..||.||..+.... .+    +....|++++.+.++..++|..++
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3211  13444555554432211 11    234568999999999999998876

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.

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

Probab=98.46  E-value=1.2e-05  Score=75.70  Aligned_cols=187  Identities=16%  Similarity=0.096  Sum_probs=112.9

Q ss_pred             cccCcccccchhHHHHHHHh--ccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLL--GVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L--~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      .-+..++|-...+..-...-  .... .....+.|+|+.|.|||.|+..+++...+..+...++.    .    ...+..
T Consensus        85 tFdnFv~g~~N~~A~aa~~~va~~~g-~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y----~----~se~f~  155 (408)
T COG0593          85 TFDNFVVGPSNRLAYAAAKAVAENPG-GAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVY----L----TSEDFT  155 (408)
T ss_pred             chhheeeCCchHHHHHHHHHHHhccC-CcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEe----c----cHHHHH
Confidence            55666777776665533322  2222 35789999999999999999999999888877555544    2    123333


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC----hHhHHHHHccCCCC-CCCcEEEEEeCChh-----
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH----PRQIEFLIGNLDWF-ASGSRILITARDKQ-----  192 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~----~~~~~~l~~~l~~~-~~~~~iliTsR~~~-----  192 (398)
                      .++...+...         .++.++...  .-=+++|||++.    ...-+++...+... ..+..||+|++..+     
T Consensus       156 ~~~v~a~~~~---------~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~  224 (408)
T COG0593         156 NDFVKALRDN---------EMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNG  224 (408)
T ss_pred             HHHHHHHHhh---------hHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence            3333333221         222333333  222889999953    22233344443322 23447888885442     


Q ss_pred             ----HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          193 ----ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       193 ----~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                          ....+..+..+.+.+.+.+.-..++.+.+.....  ...+++...+++....+-.-+..+.
T Consensus       225 ~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~--~i~~ev~~~la~~~~~nvReLegaL  287 (408)
T COG0593         225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGI--EIPDEVLEFLAKRLDRNVRELEGAL  287 (408)
T ss_pred             ccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHhhccHHHHHHHH
Confidence                2222346688999999999999999886633222  2335677777777776665554443

>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=98.44  E-value=1.2e-06  Score=70.11  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=21.3

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      |+|+||+|+|||++|+.+++.+.
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            57999999999999999999974

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 ....

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

Probab=98.38  E-value=3.7e-05  Score=67.02  Aligned_cols=119  Identities=18%  Similarity=0.269  Sum_probs=72.6

Q ss_pred             cccCcccccchhHHHHHHHhcc--CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGV--GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~--~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-..++|-+.+.+.|.+....  .. .....++++|+.|+|||++++.+++.+..+.-..+-+.    -..-.++.+++
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G-~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~----k~~L~~l~~l~   98 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQG-LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVS----KEDLGDLPELL   98 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcC-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEEC----HHHhccHHHHH
Confidence            5667899999999988775431  11 45677889999999999999999998777653333332    11112222222


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCC---ChHhHHHH---Hcc-CCCCCCCcEEEEEeCCh
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVN---HPRQIEFL---IGN-LDWFASGSRILITARDK  191 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~---~~~~~~~l---~~~-l~~~~~~~~iliTsR~~  191 (398)
                      ..+                     .  -...+++|++||+.   .......|   +.. +...+.+..|.+||...
T Consensus        99 ~~l---------------------~--~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRR  151 (249)
T PF05673_consen   99 DLL---------------------R--DRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRR  151 (249)
T ss_pred             HHH---------------------h--cCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchh
Confidence            111                     1  13578999999982   23333333   322 22335566666777444

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

Probab=98.38  E-value=1.1e-05  Score=76.74  Aligned_cols=184  Identities=11%  Similarity=0.137  Sum_probs=100.1

Q ss_pred             ccCcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      .-.++.|-+...++|.+.+.-.          .-..++.++++||+|+|||+||+.+++.....|   +.+.    .   
T Consensus       143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~f---i~i~----~---  212 (398)
T PTZ00454        143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF---IRVV----G---  212 (398)
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe----h---
Confidence            3346889988888888765310          113567899999999999999999998764432   1111    0   


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCCC--
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLDW--  177 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~~--  177 (398)
                         ..+..    ....     .......+.+.......|.+|+||+++..             .   .+..++..+..  
T Consensus       213 ---s~l~~----k~~g-----e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~  280 (398)
T PTZ00454        213 ---SEFVQ----KYLG-----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFD  280 (398)
T ss_pred             ---HHHHH----Hhcc-----hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccC
Confidence               01110    0000     00001122222333467899999998532             0   11222222221  


Q ss_pred             CCCCcEEEEEeCChhHH-Hh-c---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHH
Q 015918          178 FASGSRILITARDKQAL-IN-C---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKI  251 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~-~~-~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~  251 (398)
                      ...+..+|+||..+... +. .   .....+.++..+.++-.++|..+.........   -....+++.+.|. |.-|..
T Consensus       281 ~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~d---vd~~~la~~t~g~sgaDI~~  357 (398)
T PTZ00454        281 QTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEE---VDLEDFVSRPEKISAADIAA  357 (398)
T ss_pred             CCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcc---cCHHHHHHHcCCCCHHHHHH
Confidence            12456677777654322 21 1   23456888888888888888766532221111   1156677777654 444554


Q ss_pred             HHH
Q 015918          252 LGR  254 (398)
Q Consensus       252 l~~  254 (398)
                      ++.
T Consensus       358 l~~  360 (398)
T PTZ00454        358 ICQ  360 (398)
T ss_pred             HHH
Confidence            443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.37  E-value=2e-05  Score=71.91  Aligned_cols=129  Identities=12%  Similarity=0.110  Sum_probs=70.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ..++++|++|+|||++|+.+++.+....  ....|+.    .+    ..++    ...+...    . .......+... 
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~----v~----~~~l----~~~~~g~----~-~~~~~~~~~~a-  120 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVS----VT----RDDL----VGQYIGH----T-APKTKEILKRA-  120 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEE----ec----HHHH----hHhhccc----c-hHHHHHHHHHc-
Confidence            4688999999999999998887754321  1112332    11    1111    1111111    0 00011112221 


Q ss_pred             CCceEEEEEeCCCCh-----------HhHHHHHccCCCCCCCcEEEEEeCChhHHHhc--------CCCeeEEcCCCChh
Q 015918          151 TRKKVLIVFDDVNHP-----------RQIEFLIGNLDWFASGSRILITARDKQALINC--------GVNKIYQIKELVHV  211 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~-----------~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~--------~~~~~~~l~~L~~~  211 (398)
                        .+-+|+||+++..           +....+...+.....+.+||+++.........        .....+.+++++.+
T Consensus       121 --~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~e  198 (284)
T TIGR02880       121 --MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEA  198 (284)
T ss_pred             --cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHH
Confidence              3358999999632           12344444444334566666666543221111        12467999999999


Q ss_pred             hhHHHHHHhh
Q 015918          212 DALKLLNQCA  221 (398)
Q Consensus       212 e~~~Ll~~~~  221 (398)
                      |..+++...+
T Consensus       199 dl~~I~~~~l  208 (284)
T TIGR02880       199 ELLVIAGLML  208 (284)
T ss_pred             HHHHHHHHHH
Confidence            9999998776

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.

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

Probab=98.37  E-value=1.7e-05  Score=74.43  Aligned_cols=207  Identities=15%  Similarity=0.159  Sum_probs=120.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCC-CCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT-MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~-~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..++.++||+.|+..+..|+..... ...+.+-|.|.+|.|||.+...++.++.....  ..+++.    ...-.....+
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~in----c~sl~~~~ai  222 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYIN----CTSLTEASAI  222 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEe----eccccchHHH
Confidence            4567899999999999999864322 56778999999999999999999888665543  346665    3333455666


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCC--ceEEEEEeCCCChHh--HHHHHccCCC-CCCCcEEEEEeCCh-----
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTR--KKVLIVFDDVNHPRQ--IEFLIGNLDW-FASGSRILITARDK-----  191 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~--~~~LlvlDd~~~~~~--~~~l~~~l~~-~~~~~~iliTsR~~-----  191 (398)
                      +..++..+......+..+......+..+..+  ..+|+|+|+.|....  -..+...+.+ .-+++++++..-..     
T Consensus       223 F~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlT  302 (529)
T KOG2227|consen  223 FKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLT  302 (529)
T ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHH
Confidence            6666666633332222222233344444332  478999999874331  1111111111 02344444332111     


Q ss_pred             -hHHHhc-----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          192 -QALINC-----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       192 -~~~~~~-----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                       ...+.+     -....+..+|.+.++..+++..++.. ..........++.+++.+.|.-=-+..+...+
T Consensus       303 dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~-~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~  372 (529)
T KOG2227|consen  303 DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSE-ESTSIFLNAAIELCARKVAAPSGDLRKALDVC  372 (529)
T ss_pred             HHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhc-ccccccchHHHHHHHHHhccCchhHHHHHHHH
Confidence             111111     13467788999999999999988732 22222323345566666655544444443333

>CHL00181 cbbX CbbX; Provisional

Probab=98.37  E-value=4.7e-05  Score=69.49  Aligned_cols=131  Identities=11%  Similarity=0.110  Sum_probs=71.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhcc-C-cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRR-F-EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f-~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ...++++|++|+||||+|+.+++.+... + ....|+.    .+    ..++    ........      ......+...
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~----v~----~~~l----~~~~~g~~------~~~~~~~l~~  120 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT----VT----RDDL----VGQYIGHT------APKTKEVLKK  120 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE----ec----HHHH----HHHHhccc------hHHHHHHHHH
Confidence            3458899999999999999999875432 1 1112332    11    1111    11111110      0011111111


Q ss_pred             hCCceEEEEEeCCCCh-----------HhHHHHHccCCCCCCCcEEEEEeCChhHHH--------hcCCCeeEEcCCCCh
Q 015918          150 LTRKKVLIVFDDVNHP-----------RQIEFLIGNLDWFASGSRILITARDKQALI--------NCGVNKIYQIKELVH  210 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~-----------~~~~~l~~~l~~~~~~~~iliTsR~~~~~~--------~~~~~~~~~l~~L~~  210 (398)
                      .  ..-+|+||+++..           +....+...+......+.||+++.......        .......+.+++++.
T Consensus       121 a--~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~  198 (287)
T CHL00181        121 A--MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTP  198 (287)
T ss_pred             c--cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCH
Confidence            1  2349999999642           223444444433345566666665433211        112456799999999


Q ss_pred             hhhHHHHHHhhc
Q 015918          211 VDALKLLNQCAF  222 (398)
Q Consensus       211 ~e~~~Ll~~~~~  222 (398)
                      +|..+++...+.
T Consensus       199 ~el~~I~~~~l~  210 (287)
T CHL00181        199 EELLQIAKIMLE  210 (287)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987763

>CHL00176 ftsH cell division protein; Validated

Probab=98.34  E-value=1.7e-05  Score=79.90  Aligned_cols=182  Identities=13%  Similarity=0.087  Sum_probs=100.2

Q ss_pred             CcccccchhHHHHHHHh---ccCC------CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLL---GVGL------TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L---~~~~------~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      .+++|.++..+++.+.+   ....      ...++.++++||+|+|||+||+.++......     |+.    .+    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~----is----~  249 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFS----IS----G  249 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eee----cc----H
Confidence            45778877766666654   2211      0235679999999999999999998875322     222    11    0


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCCC--CCC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLDW--FAS  180 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~--~~~  180 (398)
                      .++...    ...     .........+.......|++|+|||++...                .+..++..+..  ...
T Consensus       250 s~f~~~----~~g-----~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~  320 (638)
T CHL00176        250 SEFVEM----FVG-----VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNK  320 (638)
T ss_pred             HHHHHH----hhh-----hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCC
Confidence            111100    000     000012223344446678999999996321                12233322221  123


Q ss_pred             CcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHHH
Q 015918          181 GSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILGR  254 (398)
Q Consensus       181 ~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~~  254 (398)
                      +..||.+|....... .+    .....+.++..+.++-.+++..++.....   ........+++.+.| .+.-|..++.
T Consensus       321 ~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~---~~d~~l~~lA~~t~G~sgaDL~~lvn  397 (638)
T CHL00176        321 GVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL---SPDVSLELIARRTPGFSGADLANLLN  397 (638)
T ss_pred             CeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc---chhHHHHHHHhcCCCCCHHHHHHHHH
Confidence            455666665543222 11    23367888888999999999887743221   123346778888877 5555555543

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

Probab=98.31  E-value=1.8e-05  Score=76.79  Aligned_cols=193  Identities=15%  Similarity=0.081  Sum_probs=117.0

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc-ceEEEeechhhhhcCCHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE-GSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      =++++|.+...+.|...+..+.  -...-..+|+.|+||||+|+-+++.+.-... ..-- |  ..+.       .+..+
T Consensus        15 F~evvGQe~v~~~L~nal~~~r--i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~eP-C--~~C~-------~Ck~I   82 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGR--IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEP-C--GKCI-------SCKEI   82 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCc--chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCc-c--hhhh-------hhHhh
Confidence            3567999999999999997643  3455668999999999999999988533211 0000 0  0000       01111


Q ss_pred             HHHH-hcCCCCCCCCccchHHHHHhh--------CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChh--
Q 015918          126 LSTL-LNDGNMNKFPNIGLNFQSKRL--------TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQ--  192 (398)
Q Consensus       126 ~~~l-~~~~~~~~~~~~~~~~l~~~l--------~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~--  192 (398)
                      ...- ..--..+...+..++.++...        .++.=+.|||+++-  ...+..|+..+-.-+.....|+.|.++.  
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki  162 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI  162 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcC
Confidence            1110 000000011111333333322        34555999999984  4567888888776666666666666552  


Q ss_pred             HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          193 ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       193 ~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      ...-.+.++.+.+..++.++....+...+...  .....++....+++..+|...-...+.
T Consensus       163 p~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E--~I~~e~~aL~~ia~~a~Gs~RDalslL  221 (515)
T COG2812         163 PNTILSRCQRFDFKRLDLEEIAKHLAAILDKE--GINIEEDALSLIARAAEGSLRDALSLL  221 (515)
T ss_pred             chhhhhccccccccCCCHHHHHHHHHHHHHhc--CCccCHHHHHHHHHHcCCChhhHHHHH
Confidence            22233567889999999999999998877332  223445778888888888766444433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.30  E-value=6.2e-05  Score=70.27  Aligned_cols=150  Identities=12%  Similarity=0.099  Sum_probs=88.0

Q ss_pred             cccc-cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---------------------CcceEEE
Q 015918           49 KLVG-VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---------------------FEGSYFA  106 (398)
Q Consensus        49 ~fvG-R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---------------------f~~~~~~  106 (398)
                      .++| -+..++.|...+..+  .-+...+++||+|+||||+|..+++.+-..                     ++...++
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~--~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i   83 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN--RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLV   83 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEe
Confidence            3556 666777788877653  245667999999999999999999885322                     1112222


Q ss_pred             eechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEE
Q 015918          107 HNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRI  184 (398)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~i  184 (398)
                      ...   .......++ .++...+...                -..+.+-++|||+++.  ......|+..+-..+..+.+
T Consensus        84 ~~~---~~~i~id~i-r~l~~~~~~~----------------~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~  143 (329)
T PRK08058         84 APD---GQSIKKDQI-RYLKEEFSKS----------------GVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTA  143 (329)
T ss_pred             ccc---cccCCHHHH-HHHHHHHhhC----------------CcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceE
Confidence            100   000011111 0111111000                0123445899999974  34456676666655667767


Q ss_pred             EEEeCCh-hHHH-hcCCCeeEEcCCCChhhhHHHHHHh
Q 015918          185 LITARDK-QALI-NCGVNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       185 liTsR~~-~~~~-~~~~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      |++|.+. .+.+ ..+.+..+++.+++.++..+.+...
T Consensus       144 Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        144 ILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             EEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            7776554 2222 2346788999999999998888653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.27  E-value=9.3e-05  Score=68.21  Aligned_cols=181  Identities=17%  Similarity=0.132  Sum_probs=96.9

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechh---hhhcCCHHHHHHHHHHHHhcCC
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE---AEETGKLADLRKELLSTLLNDG  133 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~---~~~~~~~~~~~~~i~~~l~~~~  133 (398)
                      .+.+.+.+..+  .-+..++++|+.|+||+++|..+++.+--.-+...-.+..+.   ....+++.-+.      .....
T Consensus        13 ~~~l~~~~~~~--rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~------~~p~~   84 (319)
T PRK08769         13 YDQTVAALDAG--RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVS------FIPNR   84 (319)
T ss_pred             HHHHHHHHHcC--CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEe------cCCCc
Confidence            34455555442  245578899999999999999999874322110000000000   00000000000      00000


Q ss_pred             CCCC-CCccchHHHHH---hh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCC
Q 015918          134 NMNK-FPNIGLNFQSK---RL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVN  200 (398)
Q Consensus       134 ~~~~-~~~~~~~~l~~---~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~  200 (398)
                      .... .....++.++.   .+     .++.-++|||+++.  ......++..+-+-+.++.+|++|... .+.+. .+.+
T Consensus        85 ~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRC  164 (319)
T PRK08769         85 TGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRC  164 (319)
T ss_pred             ccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhh
Confidence            0000 01122333322   22     23455999999984  445666766665555677666666543 33333 2467


Q ss_pred             eeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          201 KIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       201 ~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      ..+.+.+++.+++.+.+....    ..    +..+..++..++|.|.....+.
T Consensus       165 q~i~~~~~~~~~~~~~L~~~~----~~----~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        165 QRLEFKLPPAHEALAWLLAQG----VS----ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             eEeeCCCcCHHHHHHHHHHcC----CC----hHHHHHHHHHcCCCHHHHHHHh
Confidence            889999999999998886531    11    1226678999999998654433

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.26  E-value=8.7e-05  Score=68.53  Aligned_cols=174  Identities=13%  Similarity=0.101  Sum_probs=96.4

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcC---CC
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLND---GN  134 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~---~~  134 (398)
                      +.|.+.+..+  .-.....++|+.|+||+++|..+++.+--.-+...--|     ...    ..+..+.......   -.
T Consensus        12 ~~l~~~~~~~--rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~C-----g~C----~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871         12 QQITQAFQQG--LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPC-----GQC----HSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHcC--CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCC-----CCC----HHHHHHhcCCCCCEEEEc
Confidence            4455555542  23567779999999999999999988532211000000     000    0000100000000   00


Q ss_pred             CCCCCccchHHHH---Hhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCCee
Q 015918          135 MNKFPNIGLNFQS---KRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVNKI  202 (398)
Q Consensus       135 ~~~~~~~~~~~l~---~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~~~  202 (398)
                      +.......++.++   ..+     .++.=++|||+++.  ......++..+-+-++...+|++|.++ .+.+. .+.+..
T Consensus        81 p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~  160 (325)
T PRK06871         81 PIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQT  160 (325)
T ss_pred             cccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceE
Confidence            0000011222222   222     23455888999984  445667777776656677677666654 33333 346788


Q ss_pred             EEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          203 YQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       203 ~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      +.+.+++.+++.+.+.... ..   .   ...+..++..++|.|...
T Consensus       161 ~~~~~~~~~~~~~~L~~~~-~~---~---~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        161 WLIHPPEEQQALDWLQAQS-SA---E---ISEILTALRINYGRPLLA  200 (325)
T ss_pred             EeCCCCCHHHHHHHHHHHh-cc---C---hHHHHHHHHHcCCCHHHH
Confidence            9999999999999887653 11   1   123667788999999633

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.26  E-value=4.3e-06  Score=74.59  Aligned_cols=79  Identities=19%  Similarity=0.222  Sum_probs=47.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc----cCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR----RFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      .+++.++||||.|||+||+.+++++.-    +|....-+.    .    +..+++..++..-+      ..-....+.+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----i----nshsLFSKWFsESg------KlV~kmF~kI~  242 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----I----NSHSLFSKWFSESG------KLVAKMFQKIQ  242 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----E----ehhHHHHHHHhhhh------hHHHHHHHHHH
Confidence            488999999999999999999998543    333333332    1    22333333332221      22222445555


Q ss_pred             HhhCCce--EEEEEeCCCC
Q 015918          148 KRLTRKK--VLIVFDDVNH  164 (398)
Q Consensus       148 ~~l~~~~--~LlvlDd~~~  164 (398)
                      ..+.++.  +++.||+|+.
T Consensus       243 ELv~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  243 ELVEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HHHhCCCcEEEEEeHHHHH
Confidence            5555544  5777999853

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.25  E-value=3.4e-05  Score=76.35  Aligned_cols=183  Identities=13%  Similarity=0.080  Sum_probs=96.7

Q ss_pred             cCcccccchhHHHHHHHhc---cC------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           47 ENKLVGVDSRIEEILSLLG---VG------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~---~~------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      -.+++|-+...+++.+++.   ..      ....++-++++||+|+|||+||+.++....-.     |+.    .+    
T Consensus        54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~-----~~~----i~----  120 (495)
T TIGR01241        54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-----FFS----IS----  120 (495)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC-----eee----cc----
Confidence            3467787776666555442   10      11345679999999999999999998775332     222    10    


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCCC--CC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLDW--FA  179 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~--~~  179 (398)
                      ..++..    ....     .........+.......|.+|+|||++...                .+..++..+..  ..
T Consensus       121 ~~~~~~----~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       121 GSDFVE----MFVG-----VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHHHHH----HHhc-----ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            011111    0000     000012222333334578899999995321                11222222221  12


Q ss_pred             CCcEEEEEeCChh-HHHhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHH
Q 015918          180 SGSRILITARDKQ-ALINC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILG  253 (398)
Q Consensus       180 ~~~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~  253 (398)
                      .+..||.||..+. +.+.+    .....+.++..+.++-.+++..++.......   ......+++.+.| .+--|..++
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~---~~~l~~la~~t~G~sgadl~~l~  268 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP---DVDLKAVARRTPGFSGADLANLL  268 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc---chhHHHHHHhCCCCCHHHHHHHH
Confidence            3445555665442 11111    2345788888888888888887763322211   1225678888877 445565554


Q ss_pred             H
Q 015918          254 R  254 (398)
Q Consensus       254 ~  254 (398)
                      +
T Consensus       269 ~  269 (495)
T TIGR01241       269 N  269 (495)
T ss_pred             H
Confidence            3

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.23  E-value=1.5e-05  Score=77.62  Aligned_cols=175  Identities=14%  Similarity=0.066  Sum_probs=89.7

Q ss_pred             CcccccchhHHHHHHHhc-------c-CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHH
Q 015918           48 NKLVGVDSRIEEILSLLG-------V-GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~-------~-~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  119 (398)
                      +++.|.+...+.+.+...       . +. ..++.++++||+|+|||.+|+.+++.+.-.|    +.....         
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl-~~pkGILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~---------  293 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGL-PTPRGLLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVG---------  293 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCC-CCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhH---------
Confidence            456776655544443211       0 11 4567899999999999999999998864332    111100         


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--------------hHHHHHccCCCCCCCcEEE
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--------------QIEFLIGNLDWFASGSRIL  185 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--------------~~~~l~~~l~~~~~~~~il  185 (398)
                      .+.    ...    .+ ..+......+...-...|++|+||+++..-              .+..++..+.....+..||
T Consensus       294 ~l~----~~~----vG-ese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vI  364 (489)
T CHL00195        294 KLF----GGI----VG-ESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVV  364 (489)
T ss_pred             Hhc----ccc----cC-hHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEE
Confidence            000    000    00 000001122222223578999999996310              0112222222223445566


Q ss_pred             EEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          186 ITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       186 iTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      .||......+ .+    .....+.++.-+.++-.++|..++.... +..........+++.+.|..
T Consensus       365 aTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~-~~~~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        365 ATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFR-PKSWKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             EecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcC-CCcccccCHHHHHhhcCCCC
Confidence            6775543211 11    2345677888888888888887763321 11111122566777776544

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.21  E-value=4.2e-05  Score=79.91  Aligned_cols=55  Identities=22%  Similarity=0.227  Sum_probs=42.3

Q ss_pred             cccCcccccchhHHHHHHHhccC----CC--CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG----LT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~----~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .-...++|.+..++.+.+.+...    .+  ....+++++||+|+|||.||+.+++.+...
T Consensus       563 ~L~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~  623 (852)
T TIGR03345       563 RLAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG  623 (852)
T ss_pred             HhcCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC
Confidence            34467999999999999987421    11  223468999999999999999999887544

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.20  E-value=3.2e-05  Score=74.30  Aligned_cols=47  Identities=19%  Similarity=0.100  Sum_probs=40.2

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..|+||++.++.+...+..+     ..++|.|++|+|||+||+.+.......
T Consensus        20 ~~i~gre~vI~lll~aalag-----~hVLL~GpPGTGKT~LAraLa~~~~~~   66 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG-----ESVFLLGPPGIAKSLIARRLKFAFQNA   66 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC-----CCEEEECCCChhHHHHHHHHHHHhccc
Confidence            44999999999999988654     378899999999999999999876543

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.20  E-value=0.0001  Score=66.62  Aligned_cols=36  Identities=25%  Similarity=0.262  Sum_probs=26.6

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++.+..++..     .+.+.|.|++|+|||+||+.+++.+.
T Consensus        11 ~~~~l~~l~~-----g~~vLL~G~~GtGKT~lA~~la~~lg   46 (262)
T TIGR02640        11 TSRALRYLKS-----GYPVHLRGPAGTGKTTLAMHVARKRD   46 (262)
T ss_pred             HHHHHHHHhc-----CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            3444455533     34678999999999999999998653

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).

>PRK10536 hypothetical protein; Provisional

Probab=98.19  E-value=1.2e-05  Score=70.90  Aligned_cols=137  Identities=12%  Similarity=0.204  Sum_probs=77.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH-h-hccCcceEEEeechhhhh-----cCC
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK-I-SRRFEGSYFAHNVREAEE-----TGK  117 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~-~-~~~f~~~~~~~~~~~~~~-----~~~  117 (398)
                      .+...+.+|......+..++..     ...++++|++|+|||+||..++.. + .+.|..++.....-....     +.+
T Consensus        52 ~~~~~i~p~n~~Q~~~l~al~~-----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~  126 (262)
T PRK10536         52 RDTSPILARNEAQAHYLKAIES-----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGD  126 (262)
T ss_pred             cCCccccCCCHHHHHHHHHHhc-----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCC
Confidence            3446788899999999998864     249999999999999999999885 3 444554444321111110     222


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHH------------HHHhhCCce---EEEEEeCCCCh--HhHHHHHccCCCCCC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNF------------QSKRLTRKK---VLIVFDDVNHP--RQIEFLIGNLDWFAS  180 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~------------l~~~l~~~~---~LlvlDd~~~~--~~~~~l~~~l~~~~~  180 (398)
                      ..+-+..++..+...... -......+.            -..++++++   .+||+|++.+.  .+...++..+   +.
T Consensus       127 ~~eK~~p~~~pi~D~L~~-~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR~---g~  202 (262)
T PRK10536        127 IAEKFAPYFRPVYDVLVR-RLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTRL---GE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHH-HhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhhc---CC
Confidence            222222222222111000 000000110            112445554   49999999754  4455555443   68


Q ss_pred             CcEEEEEeCC
Q 015918          181 GSRILITARD  190 (398)
Q Consensus       181 ~~~iliTsR~  190 (398)
                      ++++|++.-.
T Consensus       203 ~sk~v~~GD~  212 (262)
T PRK10536        203 NVTVIVNGDI  212 (262)
T ss_pred             CCEEEEeCCh
Confidence            9999988753

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.18  E-value=9.7e-05  Score=68.82  Aligned_cols=173  Identities=13%  Similarity=0.103  Sum_probs=95.3

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechh---hhhcCCHHHHHHHHHHHH
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVRE---AEETGKLADLRKELLSTL  129 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~---~~~~~~~~~~~~~i~~~l  129 (398)
                      +++.+.+..+  .-.....++|+.|+||+++|..++..+--.-     +|..  |..+.   ....+++..+        
T Consensus        12 ~~l~~~~~~~--rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~--C~sC~~~~~g~HPD~~~i--------   79 (334)
T PRK07993         12 EQLVGSYQAG--RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGH--CRGCQLMQAGTHPDYYTL--------   79 (334)
T ss_pred             HHHHHHHHcC--CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCC--CHHHHHHHcCCCCCEEEE--------
Confidence            4555555442  3456788999999999999999998853211     1110  00000   0000000000        


Q ss_pred             hcCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCC
Q 015918          130 LNDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVN  200 (398)
Q Consensus       130 ~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~  200 (398)
                      ..........-..+..+.+.+     .+..=++|||+++.  ......|+..+-+-+.+..+|++|.++ .+.+. .+.+
T Consensus        80 ~p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRC  159 (334)
T PRK07993         80 TPEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRC  159 (334)
T ss_pred             ecccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence            000000001111222222222     23455999999974  455677777776656666666666554 34433 3456


Q ss_pred             eeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          201 KIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       201 ~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      ..+.+.+++.+++.+.+.... +  .+    .+.+..++..++|.|...
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~-~--~~----~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        160 RLHYLAPPPEQYALTWLSREV-T--MS----QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             ccccCCCCCHHHHHHHHHHcc-C--CC----HHHHHHHHHHcCCCHHHH
Confidence            788999999999998886542 1  11    233667889999999643

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

Probab=98.18  E-value=3.9e-06  Score=74.57  Aligned_cols=94  Identities=14%  Similarity=0.125  Sum_probs=57.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCc-c-----c
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPN-I-----G  142 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~-~-----~  142 (398)
                      .....++|.|++|+|||||++.+++.... +|+..+|+....+  ......+++..+...+........... .     .
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~e--r~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDE--RPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccC--CCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            45578899999999999999999988654 5777778773322  124677777777333322211111100 0     1


Q ss_pred             hHHHHH-hhCCceEEEEEeCCCCh
Q 015918          143 LNFQSK-RLTRKKVLIVFDDVNHP  165 (398)
Q Consensus       143 ~~~l~~-~l~~~~~LlvlDd~~~~  165 (398)
                      ...... ...++++++++|++...
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHh
Confidence            111111 23578999999999543

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.18  E-value=0.00058  Score=63.58  Aligned_cols=90  Identities=16%  Similarity=0.165  Sum_probs=60.2

Q ss_pred             ceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeCC-hhHHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCC
Q 015918          153 KKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITARD-KQALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPD  228 (398)
Q Consensus       153 ~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR~-~~~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~  228 (398)
                      +.=++|||+++  +......|+..+-+-.++..+|++|.+ ..+.+. .+.+..+.+.+++.++..+.+....    .+.
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            44489999997  445567777777665666666655544 444433 3467889999999999999887642    111


Q ss_pred             cchHHHHHHHHHHcCCChHHHHHH
Q 015918          229 ASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       229 ~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                            ...++..++|.|.....+
T Consensus       208 ------~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        208 ------ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ------HHHHHHHcCCCHHHHHHH
Confidence                  233577889999755433

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=98.18  E-value=0.00014  Score=67.90  Aligned_cols=46  Identities=13%  Similarity=0.260  Sum_probs=37.4

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +.-.+.|.+.+.......+.+|+|.|+-|+|||++.+.+.+.+...
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            4455667777776543577899999999999999999999998777

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 [].

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=98.18  E-value=5.3e-05  Score=63.04  Aligned_cols=135  Identities=17%  Similarity=0.213  Sum_probs=74.4

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc--------------------CcceEEEeechh
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR--------------------FEGSYFAHNVRE  111 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~--------------------f~~~~~~~~~~~  111 (398)
                      |-+...+.|.+.+..+  .-+..++++|+.|+||+++|..+++.+-..                    .+...|+.    
T Consensus         1 gq~~~~~~L~~~~~~~--~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~----   74 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG--RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIK----   74 (162)
T ss_dssp             S-HHHHHHHHHHHHCT--C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEE----
T ss_pred             CcHHHHHHHHHHHHcC--CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEe----
Confidence            4566777777777653  245668999999999999999999874322                    23333332    


Q ss_pred             hhh---cCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEE
Q 015918          112 AEE---TGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       112 ~~~---~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~ili  186 (398)
                      ...   .....++. .+...+....                ..+..=++|||+++.  .+....|+..+-..+..+.+|+
T Consensus        75 ~~~~~~~i~i~~ir-~i~~~~~~~~----------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL  137 (162)
T PF13177_consen   75 PDKKKKSIKIDQIR-EIIEFLSLSP----------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFIL  137 (162)
T ss_dssp             TTTSSSSBSHHHHH-HHHHHCTSS-----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEE
T ss_pred             cccccchhhHHHHH-HHHHHHHHHH----------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEE
Confidence            111   11111111 2222211111                123455999999984  4455666666555567888888


Q ss_pred             EeCChh-H-HHhcCCCeeEEcCCCC
Q 015918          187 TARDKQ-A-LINCGVNKIYQIKELV  209 (398)
Q Consensus       187 TsR~~~-~-~~~~~~~~~~~l~~L~  209 (398)
                      +|.+.. + .+-.+....+.+.++|
T Consensus       138 ~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  138 ITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EES-GGGS-HHHHTTSEEEEE----
T ss_pred             EECChHHChHHHHhhceEEecCCCC
Confidence            887653 2 2233567778887765

...

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.17  E-value=7.6e-06  Score=65.95  Aligned_cols=36  Identities=25%  Similarity=0.254  Sum_probs=28.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.+.|+|++|+||||+++.+++.+.......+++.
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            357899999999999999999998776653455554

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.

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

Probab=98.17  E-value=6.4e-05  Score=68.34  Aligned_cols=172  Identities=13%  Similarity=0.154  Sum_probs=91.8

Q ss_pred             cccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           49 KLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      .+=|-++.+++|.+.+.-          .....++-|++|||||+|||-||+.++++....     |+...+        
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At-----FIrvvg--------  218 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT-----FIRVVG--------  218 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce-----EEEecc--------
Confidence            456788888888887642          112567889999999999999999999885444     333111        


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCC-------------hHhHHHHHccCC---C--CC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNH-------------PRQIEFLIGNLD---W--FA  179 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~-------------~~~~~~l~~~l~---~--~~  179 (398)
                      .++..    ....++      ...+..+.... ...|++|++|+++.             .+.-+.++..+.   -  ..
T Consensus       219 SElVq----KYiGEG------aRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         219 SELVQ----KYIGEG------ARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             HHHHH----HHhccc------hHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence            11111    111111      11222222222 45689999999952             111222222222   1  14


Q ss_pred             CCcEEEEEeCChhHHH-h-c---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          180 SGSRILITARDKQALI-N-C---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       180 ~~~~iliTsR~~~~~~-~-~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      .+.+||..|...+... . +   .....|+++.-+.+.=.++|.-+...-......   -.+.+++.|.|.-
T Consensus       289 ~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dv---d~e~la~~~~g~s  357 (406)
T COG1222         289 GNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDV---DLELLARLTEGFS  357 (406)
T ss_pred             CCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCc---CHHHHHHhcCCCc
Confidence            5678887664442221 1 1   233456776444444456666555332222211   1667777777654

>PRK08116 hypothetical protein; Validated

Probab=98.16  E-value=2.7e-05  Score=70.39  Aligned_cols=103  Identities=21%  Similarity=0.318  Sum_probs=57.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      ...+.|+|++|+|||.||..+++.+..+...++|++          ..+++..+........      ......+...+.
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~----------~~~ll~~i~~~~~~~~------~~~~~~~~~~l~  177 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN----------FPQLLNRIKSTYKSSG------KEDENEIIRSLV  177 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE----------HHHHHHHHHHHHhccc------cccHHHHHHHhc
Confidence            346899999999999999999999876644455554          2333444433332111      111222334444


Q ss_pred             CceEEEEEeCCC--ChHh--HHHHHccCCC-CCCCcEEEEEeCCh
Q 015918          152 RKKVLIVFDDVN--HPRQ--IEFLIGNLDW-FASGSRILITARDK  191 (398)
Q Consensus       152 ~~~~LlvlDd~~--~~~~--~~~l~~~l~~-~~~~~~iliTsR~~  191 (398)
                      +-+ ||||||+.  ....  ...+...+.. ...+..+|+||...
T Consensus       178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            444 89999993  2222  2223332221 12445688888643

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

Probab=98.15  E-value=3.2e-05  Score=74.29  Aligned_cols=181  Identities=13%  Similarity=0.153  Sum_probs=98.5

Q ss_pred             CcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      .++.|.+.++++|.+.+.-.          .-..++.++|+||+|+|||++|+.+++.....|   +.+.    .     
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~f---i~V~----~-----  250 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATF---LRVV----G-----  250 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCE---EEEe----c-----
Confidence            45789999999998877421          013456788999999999999999999875543   1111    0     


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCCC--CC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLDW--FA  179 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~--~~  179 (398)
                       .++..    ....     .........+.......+++|+||+++...                .+..++..+..  ..
T Consensus       251 -seL~~----k~~G-----e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        251 -SELIQ----KYLG-----DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             -chhhh----hhcc-----hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence             00000    0000     000001112222234578899999974210                11122222211  12


Q ss_pred             CCcEEEEEeCChhHHHh-c----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHHHH
Q 015918          180 SGSRILITARDKQALIN-C----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKILG  253 (398)
Q Consensus       180 ~~~~iliTsR~~~~~~~-~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~l~  253 (398)
                      .+..||++|........ +    .....+.+++.+.++-.++|..+.........   -....++..+.|. +..|..++
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~d---vdl~~la~~t~g~sgAdI~~i~  397 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAED---VDLEEFIMAKDELSGADIKAIC  397 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcC---cCHHHHHHhcCCCCHHHHHHHH
Confidence            35667777765433222 1    23457889999999999999877633221111   1145566666553 33354444

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.13  E-value=4.2e-05  Score=76.64  Aligned_cols=199  Identities=14%  Similarity=0.084  Sum_probs=104.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechh--hhhcC----
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE--AEETG----  116 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~--~~~~~----  116 (398)
                      ..-.+++|.+..++.+..++.....  ...++++|+||+|+||||+++.++..+...  ..-|......  .+...    
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~--~~Ew~npv~~~~~~~~~~~~~  158 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQ--VQEWSNPTLPDFQKNDHKVTL  158 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhH--HHHHhhhhhhcccccccccch
Confidence            5667899999999999999875321  334679999999999999999999875322  2223210000  00000    


Q ss_pred             ----------CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-----HhHHHHHc-cCCCCCC
Q 015918          117 ----------KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-----RQIEFLIG-NLDWFAS  180 (398)
Q Consensus       117 ----------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-----~~~~~l~~-~l~~~~~  180 (398)
                                .-.+.+..++.........          .-....+++.+|+||++.+.     ..+..++. .......
T Consensus       159 s~~~~~~~~~s~~~~F~~fl~~a~~~~~~----------~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~  228 (637)
T TIGR00602       159 SLESCFSNFQSQIEVFSEFLLRATNKLQM----------LGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGR  228 (637)
T ss_pred             hhhhccccccchHHHHHHHHHHHHhhhcc----------cccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCC
Confidence                      0011111111111000000          00001346789999999431     23444433 2222222


Q ss_pred             CcEEEEEeCChh---------HH-------Hhc--CCCeeEEcCCCChhhhHHHHHHhhcCCCC---CC--cchHHHHHH
Q 015918          181 GSRILITARDKQ---------AL-------INC--GVNKIYQIKELVHVDALKLLNQCAFGRDH---PD--ASYIELTHE  237 (398)
Q Consensus       181 ~~~iliTsR~~~---------~~-------~~~--~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~---~~--~~~~~~~~~  237 (398)
                      -..|+++|-.+.         ..       ...  .....|.+.|++..+..+.+.+.+.....   ..  -...+.+..
T Consensus       229 ~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~  308 (637)
T TIGR00602       229 CPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVEL  308 (637)
T ss_pred             ceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHH
Confidence            333444442111         00       111  13456899999999988887776532111   00  012456788


Q ss_pred             HHHHcCCChHHHHHHHHH
Q 015918          238 AIKYAQGVPIALKILGRF  255 (398)
Q Consensus       238 i~~~~~g~Pl~i~~l~~~  255 (398)
                      ++..+.|--.......+.
T Consensus       309 I~~~s~GDiRsAIn~LQf  326 (637)
T TIGR00602       309 LCQGCSGDIRSAINSLQF  326 (637)
T ss_pred             HHHhCCChHHHHHHHHHH
Confidence            888888876655544444

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

>PRK08181 transposase; Validated

Probab=98.13  E-value=2.3e-05  Score=70.51  Aligned_cols=36  Identities=22%  Similarity=0.207  Sum_probs=28.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...++|+|++|+|||.|+..+++....+...+.|+.
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            346899999999999999999998766554556654

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.11  E-value=0.00068  Score=62.49  Aligned_cols=173  Identities=14%  Similarity=0.078  Sum_probs=95.1

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcC----C
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLND----G  133 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~----~  133 (398)
                      +.+.+.+..+  .-+..+.++|+.|+||+++|..+++.+--.-.... -+     ...    ..+..+.......    .
T Consensus        13 ~~l~~~~~~~--rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~-~C-----g~C----~sC~~~~~g~HPD~~~i~   80 (319)
T PRK06090         13 QNWKAGLDAG--RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSE-AC-----GFC----HSCELMQSGNHPDLHVIK   80 (319)
T ss_pred             HHHHHHHHcC--CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCC-CC-----CCC----HHHHHHHcCCCCCEEEEe
Confidence            3455555432  34567889999999999999999987422111000 00     000    0000000000000    0


Q ss_pred             CCCCCCccchHHH---HHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCCe
Q 015918          134 NMNKFPNIGLNFQ---SKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVNK  201 (398)
Q Consensus       134 ~~~~~~~~~~~~l---~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~~  201 (398)
                      .........++.+   ...+     .+..=++|||+++.  ......++..+-+-+++..+|++|.++ .+.+. .+.+.
T Consensus        81 p~~~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq  160 (319)
T PRK06090         81 PEKEGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQ  160 (319)
T ss_pred             cCcCCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcce
Confidence            0000001112222   2222     23345899999974  445666777766656666666666544 34333 35678


Q ss_pred             eEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          202 IYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       202 ~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      .+.+++++.+++.+.+....    ..      ....++..++|.|+....+
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~----~~------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        161 QWVVTPPSTAQAMQWLKGQG----IT------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             eEeCCCCCHHHHHHHHHHcC----Cc------hHHHHHHHcCCCHHHHHHH
Confidence            89999999999999886542    11      1346788999999866544

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.11  E-value=0.00042  Score=71.99  Aligned_cols=182  Identities=13%  Similarity=0.133  Sum_probs=96.5

Q ss_pred             CcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      ..+.|-+...+.|.+.+.-          .....++.++++||+|+|||++|+.+++.....|   +.+.    .     
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f---i~v~----~-----  520 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF---IAVR----G-----  520 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe----h-----
Confidence            3466777777777665531          0113456689999999999999999998865332   1111    0     


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--------------hHHHHHccCCC--CCCC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--------------QIEFLIGNLDW--FASG  181 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--------------~~~~l~~~l~~--~~~~  181 (398)
                       .++    +.....     ..+......+...-...+++|+||+++...              ....++..+..  ...+
T Consensus       521 -~~l----~~~~vG-----ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       521 -PEI----LSKWVG-----ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             -HHH----hhcccC-----cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence             111    110000     001111222222334578999999985321              12223333321  1234


Q ss_pred             cEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHHHHH
Q 015918          182 SRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKILGR  254 (398)
Q Consensus       182 ~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~l~~  254 (398)
                      ..||.||..+.... ..    .....+.+++.+.++-.++|..+.........   .....+++.|.|.- ..|..+++
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~---~~l~~la~~t~g~sgadi~~~~~  666 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED---VDLEELAEMTEGYTGADIEAVCR  666 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCcc---CCHHHHHHHcCCCCHHHHHHHHH
Confidence            55565665443221 11    23467888888988888888766532221111   11567788887654 44554443

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.10  E-value=0.00021  Score=64.46  Aligned_cols=185  Identities=18%  Similarity=0.097  Sum_probs=105.9

Q ss_pred             HHHHHHHHhccccccccCcccccchhHHHHHHHhccC-CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeec
Q 015918           31 EIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVG-LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV  109 (398)
Q Consensus        31 ~~~~~~~~~l~~~~~~~~~fvGR~~el~~l~~~L~~~-~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~  109 (398)
                      .|..-+.+++..   +-..++|-.++.+++..++... -.+....+.|.||.|+|||+|......+ .+.+.-.+.++.+
T Consensus        10 siqr~l~~rl~~---~~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~L   85 (408)
T KOG2228|consen   10 SIQRILRERLCG---PHINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRL   85 (408)
T ss_pred             HHHHHHHHHhcC---CCcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEE
Confidence            345555556555   4567999999999999998521 1145567889999999999999988877 4555445555433


Q ss_pred             hhhhhcCCHHHHHHHHHHHHh----cCCCCCCCCccchHHHHHhhC------CceEEEEEeCCCCh--HhHHH----HHc
Q 015918          110 REAEETGKLADLRKELLSTLL----NDGNMNKFPNIGLNFQSKRLT------RKKVLIVFDDVNHP--RQIEF----LIG  173 (398)
Q Consensus       110 ~~~~~~~~~~~~~~~i~~~l~----~~~~~~~~~~~~~~~l~~~l~------~~~~LlvlDd~~~~--~~~~~----l~~  173 (398)
                      .+.-..  -.-.+..|..++.    ........-......+...++      +-++++|+|++|--  ..-+.    ++.
T Consensus        86 ng~~~~--dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfD  163 (408)
T KOG2228|consen   86 NGELQT--DKIALKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFD  163 (408)
T ss_pred             Cccchh--hHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHH
Confidence            322211  1112333444432    221111111113334444442      24689999998621  11111    222


Q ss_pred             cCC-CCCCCcEEEEEeCChhHH-------HhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          174 NLD-WFASGSRILITARDKQAL-------INCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       174 ~l~-~~~~~~~iliTsR~~~~~-------~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      ... ...|-|-+-+|||..-..       ...++...+-+++++-++..++++..+
T Consensus       164 isqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  164 ISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            211 224555666888875222       222344566677889999999998876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.08  E-value=7.1e-05  Score=77.69  Aligned_cols=174  Identities=13%  Similarity=0.085  Sum_probs=92.5

Q ss_pred             CcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      +.+.|.+..++.+.+++...          .-...+.++|+||+|+|||+||+.+++.....|   +.+.. ....... 
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~---i~i~~-~~i~~~~-  252 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF---ISING-PEIMSKY-  252 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE---EEEec-HHHhccc-
Confidence            45889999999998876421          003456789999999999999999998764332   22220 0000000 


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHccCCCC-CCCcE
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIGNLDWF-ASGSR  183 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~~l~~~-~~~~~  183 (398)
                                      .. .........+.......+.+|+||+++..             .....+...+... ..+..
T Consensus       253 ----------------~g-~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       253 ----------------YG-ESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             ----------------cc-HHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence                            00 00000112222233456789999998532             1122233333221 22223


Q ss_pred             EEE-EeCChh-HHHhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          184 ILI-TARDKQ-ALINC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       184 ili-TsR~~~-~~~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      +++ +|..+. +.+.+    .....+.++..+.++-.+++...........   ......+++.+.|..
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~---d~~l~~la~~t~G~~  381 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE---DVDLDKLAEVTHGFV  381 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc---ccCHHHHHHhCCCCC
Confidence            343 443332 11111    1235677888888888888876542221111   122667778887754

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.08  E-value=0.00016  Score=75.82  Aligned_cols=55  Identities=18%  Similarity=0.261  Sum_probs=41.9

Q ss_pred             cccCcccccchhHHHHHHHhccC----CC-C-CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG----LT-M-DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~----~~-~-~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .-...++|.+..++.+...+...    .+ + ....++++||+|+|||+||+.+++.+...
T Consensus       565 ~l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~  625 (857)
T PRK10865        565 ELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS  625 (857)
T ss_pred             HhCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC
Confidence            34557999999999999987531    11 1 22478899999999999999999876543

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.08  E-value=8.1e-05  Score=73.96  Aligned_cols=47  Identities=26%  Similarity=0.353  Sum_probs=39.0

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      -++++|.+..++.+...+..   +....++|+|++|+|||++|+.+.+..
T Consensus        64 f~~iiGqs~~i~~l~~al~~---~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCG---PNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhC---CCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            34699999999999987754   345678899999999999999987653

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.06  E-value=8.4e-06  Score=75.91  Aligned_cols=92  Identities=13%  Similarity=0.142  Sum_probs=57.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCcc-------
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNI-------  141 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~-------  141 (398)
                      ++.+..+|.|++|+|||||++++++.+.. +|+..+|+...++  ......++...+...+.... .+.....       
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgE--R~~EVtdiqrsIlg~vv~st-~d~~~~~~~~~a~~  243 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDE--RPEEVTDMQRSVKGEVVAST-FDEPAERHVQVAEM  243 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCC--chhHHHHHHHHhcCcEEEEC-CCCCHHHHHHHHHH
Confidence            45567889999999999999999998655 5888889885433  12355666666653222221 1122222       


Q ss_pred             chHHHHHh-hCCceEEEEEeCCCC
Q 015918          142 GLNFQSKR-LTRKKVLIVFDDVNH  164 (398)
Q Consensus       142 ~~~~l~~~-l~~~~~LlvlDd~~~  164 (398)
                      ........ ..+++++|++|++..
T Consensus       244 ~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        244 VIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHcCCCEEEEEEChHH
Confidence            11111111 367899999999953

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.05  E-value=0.00034  Score=66.75  Aligned_cols=128  Identities=18%  Similarity=0.192  Sum_probs=74.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC--CHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG--KLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      .+...+++.||+|+|||+||.+++..  ..|+++-.++    ...-.  +-..-+..+                 .....
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~--S~FPFvKiiS----pe~miG~sEsaKc~~i-----------------~k~F~  592 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS--SDFPFVKIIS----PEDMIGLSESAKCAHI-----------------KKIFE  592 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh--cCCCeEEEeC----hHHccCccHHHHHHHH-----------------HHHHH
Confidence            56678899999999999999999876  7888766654    11100  111111111                 11122


Q ss_pred             HhhCCceEEEEEeCCCChHh------------HHHHHccCCCCC-CCcE--EEEEeCChhHHHhcC----CCeeEEcCCC
Q 015918          148 KRLTRKKVLIVFDDVNHPRQ------------IEFLIGNLDWFA-SGSR--ILITARDKQALINCG----VNKIYQIKEL  208 (398)
Q Consensus       148 ~~l~~~~~LlvlDd~~~~~~------------~~~l~~~l~~~~-~~~~--iliTsR~~~~~~~~~----~~~~~~l~~L  208 (398)
                      ..-+..-.+||+||++..-+            ++.++-.+...+ .+.+  |+-||....+...+.    ....+.++.+
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            22345567999999954322            333333333222 2333  344565566666553    4567899999


Q ss_pred             Ch-hhhHHHHHHh
Q 015918          209 VH-VDALKLLNQC  220 (398)
Q Consensus       209 ~~-~e~~~Ll~~~  220 (398)
                      +. ++..+.+...
T Consensus       673 ~~~~~~~~vl~~~  685 (744)
T KOG0741|consen  673 TTGEQLLEVLEEL  685 (744)
T ss_pred             CchHHHHHHHHHc
Confidence            87 6777777654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.05  E-value=0.0005  Score=63.10  Aligned_cols=51  Identities=10%  Similarity=0.139  Sum_probs=39.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ..++.|+=.......+..++..     .+.|.|.|++|+||||+++.+++.+.-.+
T Consensus        42 ~~d~~y~f~~~~~~~vl~~l~~-----~~~ilL~G~pGtGKTtla~~lA~~l~~~~   92 (327)
T TIGR01650        42 DIDPAYLFDKATTKAICAGFAY-----DRRVMVQGYHGTGKSTHIEQIAARLNWPC   92 (327)
T ss_pred             CCCCCccCCHHHHHHHHHHHhc-----CCcEEEEeCCCChHHHHHHHHHHHHCCCe
Confidence            4455566666677778777753     24699999999999999999999986554

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK12377 putative replication protein; Provisional

Probab=98.04  E-value=4.5e-05  Score=67.75  Aligned_cols=37  Identities=16%  Similarity=0.177  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +...+.++|++|+|||+||..+++.+..+...+.|+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            3467899999999999999999999877655566665

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.04  E-value=0.00015  Score=67.76  Aligned_cols=143  Identities=16%  Similarity=0.134  Sum_probs=82.9

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC---------------------cceEEEe
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF---------------------EGSYFAH  107 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f---------------------~~~~~~~  107 (398)
                      .++|-+.....+..+..... ..+..+.++||+|+||||+|..+++.+....                     +.+..+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~-~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~   80 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG-RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN   80 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC-CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec
Confidence            46777788888888887443 3444699999999999999999999865332                     2233332


Q ss_pred             echhhhhcCC---HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--hHHHHHccCCCCCCCc
Q 015918          108 NVREAEETGK---LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGS  182 (398)
Q Consensus       108 ~~~~~~~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~  182 (398)
                          .+....   ..+...++.........                .+..-+++||+++...  ....+...+...+...
T Consensus        81 ----~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~  140 (325)
T COG0470          81 ----PSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNT  140 (325)
T ss_pred             ----ccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCe
Confidence                111111   12222222222211110                2456699999998543  3555555555556677


Q ss_pred             EEEEEeCCh-hHHH-hcCCCeeEEcCCCChhh
Q 015918          183 RILITARDK-QALI-NCGVNKIYQIKELVHVD  212 (398)
Q Consensus       183 ~iliTsR~~-~~~~-~~~~~~~~~l~~L~~~e  212 (398)
                      .+|+++..+ .+.+ ..+.+..+++.+.+...
T Consensus       141 ~~il~~n~~~~il~tI~SRc~~i~f~~~~~~~  172 (325)
T COG0470         141 RFILITNDPSKILPTIRSRCQRIRFKPPSRLE  172 (325)
T ss_pred             EEEEEcCChhhccchhhhcceeeecCCchHHH
Confidence            777776643 3332 22456777887744333

>TIGR00767 rho transcription termination factor Rho

Probab=98.03  E-value=1.5e-05  Score=74.56  Aligned_cols=93  Identities=14%  Similarity=0.124  Sum_probs=60.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCcc-------
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNI-------  141 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~-------  141 (398)
                      ++.+.++|+|++|+|||||+..+++.+..+ |+..+|+...++  ....+.++...+...+...... .....       
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgE--R~~EVtDLqrsIlg~Vvast~d-~p~~~~~~va~~  242 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDE--RPEEVTDMQRSVKGEVVASTFD-EPASRHVQVAEM  242 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCC--CCccHHHHHHHhhceEEEecCC-CChHHHHHHHHH
Confidence            456789999999999999999999987666 777788874322  2357778888775444333221 11111       


Q ss_pred             chHHHHH-hhCCceEEEEEeCCCCh
Q 015918          142 GLNFQSK-RLTRKKVLIVFDDVNHP  165 (398)
Q Consensus       142 ~~~~l~~-~l~~~~~LlvlDd~~~~  165 (398)
                      ..+.... ...+++++|++|++...
T Consensus       243 v~e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       243 VIEKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHHHcCCCeEEEEEChhHH
Confidence            1111111 23578999999999643

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

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=98.03  E-value=0.00022  Score=65.97  Aligned_cols=154  Identities=18%  Similarity=0.149  Sum_probs=81.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhh--cCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEE--TGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      ..++.++||||+|+|||.+|+.+++...-.|   +.++ ..++..  ....++.+.+++......               
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~~---i~vs-a~eL~sk~vGEsEk~IR~~F~~A~~~---------------  206 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIEP---IVMS-AGELESENAGEPGKLIRQRYREAADI---------------  206 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCCe---EEEE-HHHhhcCcCCcHHHHHHHHHHHHHHH---------------
Confidence            5678999999999999999999999865442   2222 111111  112233333332222110               


Q ss_pred             HhhCCceEEEEEeCCCCh------------HhH--HHHHccCC--------------CCCCCcEEEEEeCChhHHH--hc
Q 015918          148 KRLTRKKVLIVFDDVNHP------------RQI--EFLIGNLD--------------WFASGSRILITARDKQALI--NC  197 (398)
Q Consensus       148 ~~l~~~~~LlvlDd~~~~------------~~~--~~l~~~l~--------------~~~~~~~iliTsR~~~~~~--~~  197 (398)
                      ..-+.++++|+||+++..            .+.  ..|+..+.              ...+...||+||..+....  ..
T Consensus       207 a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALl  286 (413)
T PLN00020        207 IKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLI  286 (413)
T ss_pred             hhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHc
Confidence            002468999999998520            111  12332211              1234566777775553211  11


Q ss_pred             C--CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH
Q 015918          198 G--VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       198 ~--~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                      +  .... .+..-+.++-.++++.+......+    ...+..+++.+.|-|+
T Consensus       287 RpGRfDk-~i~lPd~e~R~eIL~~~~r~~~l~----~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        287 RDGRMEK-FYWAPTREDRIGVVHGIFRDDGVS----REDVVKLVDTFPGQPL  333 (413)
T ss_pred             CCCCCCc-eeCCCCHHHHHHHHHHHhccCCCC----HHHHHHHHHcCCCCCc
Confidence            1  1111 233346667777777666333222    2447778888888875

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

Probab=98.03  E-value=5.3e-05  Score=74.79  Aligned_cols=162  Identities=17%  Similarity=0.174  Sum_probs=94.5

Q ss_pred             cCcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      +.+=+|-++--++|.++|...   ..-+.++++++||||+|||+|++.+++.+..+|-....    ++.+   +.+++  
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sL----GGvr---DEAEI--  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISL----GGVR---DEAEI--  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEec----Cccc---cHHHh--
Confidence            345678888889999888521   11456899999999999999999999999888632221    1111   11111  


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH------hHHHHHccCC------------CC---CCCc
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR------QIEFLIGNLD------------WF---ASGS  182 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~------~~~~l~~~l~------------~~---~~~~  182 (398)
                         +....+.-+ ..+...++.+.. .+.++.+++||+++...      .-..++..+.            ..   -...
T Consensus       393 ---RGHRRTYIG-amPGrIiQ~mkk-a~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~V  467 (782)
T COG0466         393 ---RGHRRTYIG-AMPGKIIQGMKK-AGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKV  467 (782)
T ss_pred             ---ccccccccc-cCChHHHHHHHH-hCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhhe
Confidence               111111111 122223333333 35677799999996311      1222222221            11   1123


Q ss_pred             EEEEEeCChh--HHHhcCCCeeEEcCCCChhhhHHHHHHhhc
Q 015918          183 RILITARDKQ--ALINCGVNKIYQIKELVHVDALKLLNQCAF  222 (398)
Q Consensus       183 ~iliTsR~~~--~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~  222 (398)
                      .+|.|+.+.+  +.+.+..-+.|++.+.+.+|=.++..+++.
T Consensus       468 mFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         468 MFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             EEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            3444554433  344456678899999999999999888763

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=4.6e-05  Score=73.71  Aligned_cols=174  Identities=13%  Similarity=0.098  Sum_probs=94.4

Q ss_pred             cCcccccchhHHHHHHHhccCCC---------CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLT---------MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~---------~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      -+++=|-+..+.+|...+.....         ..++-+++|||+|+|||.||+.++..+.-.     |+.    ++    
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-----f~~----is----  255 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-----FLS----IS----  255 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-----eEe----ec----
Confidence            45678899999999887742211         456789999999999999999999886444     333    11    


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccC---CCC---
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNL---DWF---  178 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l---~~~---  178 (398)
                      ..    ++.+.+..     ..+....+.+......-|++++||+++...             ....|+..+   ...   
T Consensus       256 Ap----eivSGvSG-----ESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~  326 (802)
T KOG0733|consen  256 AP----EIVSGVSG-----ESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTK  326 (802)
T ss_pred             ch----hhhcccCc-----ccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccC
Confidence            01    11111111     111123444445556789999999996310             122222222   211   


Q ss_pred             CCCcEEEE-EeCChhHHHhcC----CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC
Q 015918          179 ASGSRILI-TARDKQALINCG----VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV  245 (398)
Q Consensus       179 ~~~~~ili-TsR~~~~~~~~~----~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~  245 (398)
                      +..+.||- |+|-..+.+.+.    ....|.|.--+..+=.++++..+.+-......   -..++++.+-|+
T Consensus       327 g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~---d~~qlA~lTPGf  395 (802)
T KOG0733|consen  327 GDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDF---DFKQLAKLTPGF  395 (802)
T ss_pred             CCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCc---CHHHHHhcCCCc
Confidence            12222222 445443322221    33456666556666666676655332222211   167777777654

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.01  E-value=5.9e-05  Score=66.83  Aligned_cols=50  Identities=14%  Similarity=0.089  Sum_probs=35.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..+.++..... .+...++++|++|+|||+|+..+++.+......+.++.
T Consensus        85 l~~a~~~~~~~~-~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         85 LSKARQYVEEFD-GNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             HHHHHHHHHhhc-cCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            444444443322 33457899999999999999999999876655566654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.99  E-value=1e-05  Score=68.31  Aligned_cols=37  Identities=27%  Similarity=0.300  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...-++++|++|+|||.||..+++.+..+...+.|+.
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            4467999999999999999999988666655566665

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.98  E-value=4.6e-05  Score=74.81  Aligned_cols=61  Identities=23%  Similarity=0.259  Sum_probs=45.8

Q ss_pred             cccCcccccchhHHHHHHHhccCCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....+++--.+-++++.+||.....  ...++++|+||+|+||||.++.+++.+  .+...-|..
T Consensus        16 ~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el--g~~v~Ew~n   78 (519)
T PF03215_consen   16 KTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL--GFEVQEWIN   78 (519)
T ss_pred             CCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh--CCeeEEecC
Confidence            3445566667888999999975321  346799999999999999999999985  344555654

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

Probab=97.97  E-value=0.00061  Score=58.44  Aligned_cols=50  Identities=20%  Similarity=0.196  Sum_probs=42.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .-.++||-++-++.+.-....   +..+.++|.||||+||||-+..+++.+-.
T Consensus        25 ~l~dIVGNe~tv~rl~via~~---gnmP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAKE---GNMPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHHc---CCCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence            446799999999999888776   55678899999999999999999888543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.97  E-value=0.00043  Score=72.95  Aligned_cols=54  Identities=22%  Similarity=0.267  Sum_probs=42.1

Q ss_pred             ccCcccccchhHHHHHHHhccCC----C--CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL----T--MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~----~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      -...++|.+..++.+...+....    +  .....+++.||+|+|||++|+.+++.+...
T Consensus       563 l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~  622 (852)
T TIGR03346       563 LHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD  622 (852)
T ss_pred             hhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            34569999999999999886321    1  123568899999999999999999886544

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

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

Probab=97.96  E-value=0.00046  Score=71.55  Aligned_cols=52  Identities=23%  Similarity=0.290  Sum_probs=40.4

Q ss_pred             ccCcccccchhHHHHHHHhccC----CC-C-CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVG----LT-M-DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~----~~-~-~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      -...++|.+..++.+...+...    .+ . ....++++||+|+|||+||+.+++.+.
T Consensus       452 l~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       452 LKAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             HhcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            3567899999999998887521    10 1 234688999999999999999999873

>PRK04132 replication factor C small subunit; Provisional

Probab=97.96  E-value=0.0014  Score=67.86  Aligned_cols=159  Identities=14%  Similarity=0.075  Sum_probs=95.2

Q ss_pred             EEc--CCCccHHHHHHHHHHHhhcc-Cc-ceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC
Q 015918           77 IWG--IGGVGKTAIAGAFFSKISRR-FE-GSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR  152 (398)
Q Consensus        77 I~G--~~G~GKTtLa~~~~~~~~~~-f~-~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  152 (398)
                      +.|  |.++||||+|..+++.+-.+ +. ..+-++    ++...... .++++...+....+.              ...
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElN----ASd~rgid-~IR~iIk~~a~~~~~--------------~~~  629 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELFGENWRHNFLELN----ASDERGIN-VIREKVKEFARTKPI--------------GGA  629 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEe----CCCcccHH-HHHHHHHHHHhcCCc--------------CCC
Confidence            557  99999999999999986332 21 233333    22222222 333333333221110              012


Q ss_pred             ceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hHH-HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCC
Q 015918          153 KKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QAL-INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPD  228 (398)
Q Consensus       153 ~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~  228 (398)
                      +.-++|||+++..  .....|...+-..+..+++|+++.+. .+. +..+.+..+.+.+++.++..+.+...+.....  
T Consensus       630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi--  707 (846)
T PRK04132        630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL--  707 (846)
T ss_pred             CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC--
Confidence            4469999999854  34555555554444566666655544 332 22356788999999999999888776532121  


Q ss_pred             cchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          229 ASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       229 ~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ...++....+++.++|.+.....+...+
T Consensus       708 ~i~~e~L~~Ia~~s~GDlR~AIn~Lq~~  735 (846)
T PRK04132        708 ELTEEGLQAILYIAEGDMRRAINILQAA  735 (846)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1235678999999999997665554443

>PRK09183 transposase/IS protein; Provisional

Probab=97.94  E-value=5.3e-05  Score=68.14  Aligned_cols=37  Identities=27%  Similarity=0.205  Sum_probs=27.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++|+||+|+|||+|+..++.........+.|+.
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~  137 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT  137 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4457889999999999999999887554443444543

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=0.00012  Score=74.18  Aligned_cols=153  Identities=16%  Similarity=0.173  Sum_probs=85.6

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-Cc-----ceEEEeechhhhhcCCHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FE-----GSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~-----~~~~~~~~~~~~~~~~~~~  120 (398)
                      -.+.+||+.|++++.+.|....   ..--+++|++|+|||+++.-++.++... -+     ..++.-++..+        
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~---KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~L--------  237 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRT---KNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSL--------  237 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccC---CCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHH--------
Confidence            3569999999999999997643   2223467999999999999999885433 11     11221111110        


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-----------HhHHHHHccCCCCCCCcEEE-EEe
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-----------RQIEFLIGNLDWFASGSRIL-ITA  188 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-----------~~~~~l~~~l~~~~~~~~il-iTs  188 (398)
                              .-.....-+.++.....+...-+..+++|+||+++..           +...-+-+.+.  ....++| .||
T Consensus       238 --------vAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLA--RGeL~~IGATT  307 (786)
T COG0542         238 --------VAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALA--RGELRCIGATT  307 (786)
T ss_pred             --------hccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHh--cCCeEEEEecc
Confidence                    0011000011111222333333345899999999531           11222333333  2233444 455


Q ss_pred             CChhH------HHhcCCCeeEEcCCCChhhhHHHHHHh
Q 015918          189 RDKQA------LINCGVNKIYQIKELVHVDALKLLNQC  220 (398)
Q Consensus       189 R~~~~------~~~~~~~~~~~l~~L~~~e~~~Ll~~~  220 (398)
                      -++.-      .......+.+.+...+.+++..+++-.
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            33311      112246788899999999999887643

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.93  E-value=0.0002  Score=75.20  Aligned_cols=53  Identities=19%  Similarity=0.241  Sum_probs=40.7

Q ss_pred             cCcccccchhHHHHHHHhccC----CC-C-CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           47 ENKLVGVDSRIEEILSLLGVG----LT-M-DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~----~~-~-~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...++|.+..++.+...+...    .+ . ....++++||+|+|||+||+.+++.+...
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~  566 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS  566 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC
Confidence            467999999999998887521    11 1 23457799999999999999999886443

>TIGR00763 lon ATP-dependent protease La

Probab=97.92  E-value=0.00011  Score=76.47  Aligned_cols=160  Identities=19%  Similarity=0.177  Sum_probs=84.7

Q ss_pred             CcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ...+|.+...+.+.+++...   ...+.+.++++||+|+|||++|+.+++.+...|-.   +.    .....+..++.. 
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~---i~----~~~~~~~~~i~g-  391 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVR---FS----LGGVRDEAEIRG-  391 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEE---Ee----CCCcccHHHHcC-
Confidence            35788888888888866421   11344589999999999999999999987555321   11    111111111110 


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH------hHHHHHccCC--------CC-------CCCcE
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR------QIEFLIGNLD--------WF-------ASGSR  183 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~------~~~~l~~~l~--------~~-------~~~~~  183 (398)
                          ....... .......+.+... ...+.+|+||+++...      ....++..+.        ..       ..+..
T Consensus       392 ----~~~~~~g-~~~g~i~~~l~~~-~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~  465 (775)
T TIGR00763       392 ----HRRTYVG-AMPGRIIQGLKKA-KTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVI  465 (775)
T ss_pred             ----CCCceeC-CCCchHHHHHHHh-CcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEE
Confidence                0000000 1111122233322 2334488999996431      1122322221        00       02334


Q ss_pred             EEEEeCChh--HHHhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          184 ILITARDKQ--ALINCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       184 iliTsR~~~--~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +|.||....  .....+....+++++++.++-.+++.+.+
T Consensus       466 ~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       466 FIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            455554331  12223455789999999999888887654

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.

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

Probab=97.92  E-value=0.00016  Score=74.93  Aligned_cols=161  Identities=17%  Similarity=0.184  Sum_probs=89.6

Q ss_pred             cCcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      +...+|-++.-++|.+++...   .......++++||+|+||||+++.++..+...|-.   +.    .....+...+..
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~---i~----~~~~~d~~~i~g  393 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVR---MA----LGGVRDEAEIRG  393 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---EE----cCCCCCHHHhcc
Confidence            345899999999998887631   11345679999999999999999999887655322   11    111111111111


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHh------HHHHHccCCCC---------------CCCc
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQ------IEFLIGNLDWF---------------ASGS  182 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~------~~~l~~~l~~~---------------~~~~  182 (398)
                      .. ...    .. ..+....+.+.. ......+|+||+++....      ...|+..+...               -..+
T Consensus       394 ~~-~~~----~g-~~~G~~~~~l~~-~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        394 HR-RTY----IG-SMPGKLIQKMAK-VGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             ch-hcc----CC-CCCcHHHHHHHh-cCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCce
Confidence            00 000    00 111112222222 222345789999963221      23444333210               1344


Q ss_pred             EEEEEeCChhHH-HhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          183 RILITARDKQAL-INCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       183 ~iliTsR~~~~~-~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      .+|.|+.+..+. +..+....+.+.+++.+|-.++..+++
T Consensus       467 ~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        467 MFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            455566543322 223456788999999999999988776

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.92  E-value=9.7e-05  Score=67.95  Aligned_cols=56  Identities=20%  Similarity=0.185  Sum_probs=40.0

Q ss_pred             ccchhHHHHHHHhccCCC-CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           52 GVDSRIEEILSLLGVGLT-MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~-~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +|...++...+++..-.. ...+.+.|+|++|+|||.|+..+++.+..+...+.|+.
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~  191 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH  191 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            555555556666653221 24567999999999999999999999876655566655

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.91  E-value=0.00076  Score=62.29  Aligned_cols=48  Identities=17%  Similarity=0.059  Sum_probs=34.2

Q ss_pred             eEEcCCCChhhhHHHHHHhhcCCCCCC-cchHHHHHHHHHHcCCChHHH
Q 015918          202 IYQIKELVHVDALKLLNQCAFGRDHPD-ASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       202 ~~~l~~L~~~e~~~Ll~~~~~~~~~~~-~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      .+++++++.+|+..++.-......... ...+...+++.-.++|||.-+
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            789999999999999986653322221 334456677777779999754

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).

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.89  E-value=0.00057  Score=63.46  Aligned_cols=86  Identities=14%  Similarity=0.179  Sum_probs=50.9

Q ss_pred             ceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChh-HHHh-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCC
Q 015918          153 KKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQ-ALIN-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPD  228 (398)
Q Consensus       153 ~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~-~~~~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~  228 (398)
                      ++-++|+|+++.  ......++..+.....+..+|++|.+.. +.+. .+.+..+.+.+++.+++.+.+....    ...
T Consensus       113 ~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~~  188 (325)
T PRK08699        113 GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----VAE  188 (325)
T ss_pred             CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----CCc
Confidence            334566798863  3444455544443334566777776543 3322 2456788999999999998886542    111


Q ss_pred             cchHHHHHHHHHHcCCChHH
Q 015918          229 ASYIELTHEAIKYAQGVPIA  248 (398)
Q Consensus       229 ~~~~~~~~~i~~~~~g~Pl~  248 (398)
                            ....+..++|.|+.
T Consensus       189 ------~~~~l~~~~g~p~~  202 (325)
T PRK08699        189 ------PEERLAFHSGAPLF  202 (325)
T ss_pred             ------HHHHHHHhCCChhh
Confidence                  11123568899964

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

Probab=97.88  E-value=5.3e-05  Score=72.17  Aligned_cols=105  Identities=22%  Similarity=0.241  Sum_probs=63.8

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc--cCcceEEEeechhhhhcCCHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR--RFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..+.++.+..++.+...|..     .+.++++|++|+|||++|+.+++.+..  .+..+.|+.    .++..+..+++..
T Consensus       174 l~d~~i~e~~le~l~~~L~~-----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt----FHpsySYeDFI~G  244 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTI-----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ----FHQSYSYEDFIQG  244 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhc-----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe----ecccccHHHHhcc
Confidence            34578888999999998864     347888999999999999999998754  344555655    4444444444332


Q ss_pred             HHHHHhcCCCCCCCCc-cchHHHHHhh--CCceEEEEEeCCCC
Q 015918          125 LLSTLLNDGNMNKFPN-IGLNFQSKRL--TRKKVLIVFDDVNH  164 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~-~~~~~l~~~l--~~~~~LlvlDd~~~  164 (398)
                      ..    .......... .....+....  ..++++||||+++.
T Consensus       245 ~r----P~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINR  283 (459)
T PRK11331        245 YR----PNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINR  283 (459)
T ss_pred             cC----CCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhc
Confidence            21    1110001111 1122222222  24689999999963

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.87  E-value=3.9e-05  Score=62.08  Aligned_cols=45  Identities=22%  Similarity=0.207  Sum_probs=34.1

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ||+...++++.+.+.... .....|+|+|++|+||+++|+.+...-
T Consensus         1 vG~S~~~~~l~~~l~~~a-~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA-KSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH-CSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHh-CCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            578888888888776544 455678999999999999999877663

>PRK06526 transposase; Provisional

Probab=97.86  E-value=4.3e-05  Score=68.32  Aligned_cols=36  Identities=22%  Similarity=0.178  Sum_probs=27.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ....++|+||+|+|||+||..++.........+.|.
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~  132 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFA  132 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhh
Confidence            445689999999999999999998865543334443

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

Probab=97.85  E-value=0.00037  Score=68.87  Aligned_cols=160  Identities=20%  Similarity=0.217  Sum_probs=89.3

Q ss_pred             CcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      +.=+|-++--+++.+++...   ...+.++++.+||+|+|||++++.+++.+..+|-. +-+   ++.   .+..++.  
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfR-fSv---GG~---tDvAeIk--  481 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFR-FSV---GGM---TDVAEIK--  481 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEE-Eec---ccc---ccHHhhc--
Confidence            45678888888888887521   11567899999999999999999999998888632 111   111   1211111  


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh------HhHHHHHccC------------CCC-CCCcEEE
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP------RQIEFLIGNL------------DWF-ASGSRIL  185 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~------~~~~~l~~~l------------~~~-~~~~~il  185 (398)
                         ....+..+ ..+.-.++.+.. .+..+.|+.||+++..      +.-..++..+            ... -.-++|+
T Consensus       482 ---GHRRTYVG-AMPGkiIq~LK~-v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVL  556 (906)
T KOG2004|consen  482 ---GHRRTYVG-AMPGKIIQCLKK-VKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVL  556 (906)
T ss_pred             ---ccceeeec-cCChHHHHHHHh-hCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheE
Confidence               00111111 111113333333 2456679999999631      1111222211            111 1223343


Q ss_pred             --EEeCCh--hHHHhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          186 --ITARDK--QALINCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       186 --iTsR~~--~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                        .|+..-  -..+....-+.|++.+...+|=.++..+++
T Consensus       557 FicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  557 FICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             EEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence              333221  122333455789999999999999988876

>PRK04296 thymidine kinase; Provisional

Probab=97.82  E-value=3.8e-05  Score=65.76  Aligned_cols=110  Identities=13%  Similarity=0.011  Sum_probs=58.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCC--CCCCccchHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNM--NKFPNIGLNFQSKRL  150 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l  150 (398)
                      .+.+|+|++|+||||++..++.+.......+.++..  .......    ...+...++.....  ..........+.. .
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~--~~d~~~~----~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~   75 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP--AIDDRYG----EGKVVSRIGLSREAIPVSSDTDIFELIEE-E   75 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec--ccccccc----CCcEecCCCCcccceEeCChHHHHHHHHh-h
Confidence            478899999999999999999987666555554431  0011111    11122222111000  0000112222222 2


Q ss_pred             CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh
Q 015918          151 TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK  191 (398)
Q Consensus       151 ~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~  191 (398)
                      .++.-+||||++.-  .+++..+...+.  ..+..+++|.+..
T Consensus        76 ~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~  116 (190)
T PRK04296         76 GEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDT  116 (190)
T ss_pred             CCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCc
Confidence            33556999999963  333444444432  4678899999874

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.82  E-value=9.2e-05  Score=61.38  Aligned_cols=34  Identities=21%  Similarity=0.270  Sum_probs=28.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++|+|++|+||||++..++.........++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3679999999999999999998776666677776

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=97.82  E-value=0.00018  Score=64.47  Aligned_cols=74  Identities=23%  Similarity=0.227  Sum_probs=47.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      +..-++++|++|+|||.||..+.+.+......+.|+.          ..+++..+-...... .       ....+...+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~----------~~el~~~Lk~~~~~~-~-------~~~~l~~~l  165 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT----------APDLLSKLKAAFDEG-R-------LEEKLLREL  165 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE----------HHHHHHHHHHHHhcC-c-------hHHHHHHHh
Confidence            5567999999999999999999999885545555554          244444444433321 0       112233323


Q ss_pred             CCceEEEEEeCCC
Q 015918          151 TRKKVLIVFDDVN  163 (398)
Q Consensus       151 ~~~~~LlvlDd~~  163 (398)
                      .. -=||||||+-
T Consensus       166 ~~-~dlLIiDDlG  177 (254)
T COG1484         166 KK-VDLLIIDDIG  177 (254)
T ss_pred             hc-CCEEEEeccc
Confidence            32 2389999993

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.82  E-value=0.0014  Score=64.82  Aligned_cols=175  Identities=14%  Similarity=0.155  Sum_probs=106.5

Q ss_pred             cccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhh-----ccCcceEEEeechhhhhcCC
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKIS-----RRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~-----~~f~~~~~~~~~~~~~~~~~  117 (398)
                      ..+..+-+|+.|..+|..++..--  .+....+-|+|.+|+|||..+..+.+.++     .+.+...|+. +. ...-..
T Consensus       393 ~vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yve-IN-gm~l~~  470 (767)
T KOG1514|consen  393 AVPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVE-IN-GLRLAS  470 (767)
T ss_pred             hccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEE-Ec-ceeecC
Confidence            467789999999999999886321  13455899999999999999999999754     2222223332 00 222344


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC-----CceEEEEEeCCCChHh--HHHHHccCCCC-CCCcEEEEEe-
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT-----RKKVLIVFDDVNHPRQ--IEFLIGNLDWF-ASGSRILITA-  188 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlvlDd~~~~~~--~~~l~~~l~~~-~~~~~iliTs-  188 (398)
                      +.++...|...+....   .......+.+..++.     .+++++++|+++....  -+-+...+.|. .++++++|.+ 
T Consensus       471 ~~~~Y~~I~~~lsg~~---~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~I  547 (767)
T KOG1514|consen  471 PREIYEKIWEALSGER---VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAI  547 (767)
T ss_pred             HHHHHHHHHHhcccCc---ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEe
Confidence            6777777766664432   122224445554443     4678999999975432  12222222221 3455554432 


Q ss_pred             -CChhHHHh-c-------CCCeeEEcCCCChhhhHHHHHHhhcCC
Q 015918          189 -RDKQALIN-C-------GVNKIYQIKELVHVDALKLLNQCAFGR  224 (398)
Q Consensus       189 -R~~~~~~~-~-------~~~~~~~l~~L~~~e~~~Ll~~~~~~~  224 (398)
                       ........ +       -+...+...|.+..+..+++..++.+.
T Consensus       548 aNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~  592 (767)
T KOG1514|consen  548 ANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL  592 (767)
T ss_pred             cccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch
Confidence             22211111 1       145778899999999999999887554

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.00023  Score=72.03  Aligned_cols=121  Identities=20%  Similarity=0.215  Sum_probs=72.4

Q ss_pred             ccCcccccchhHHHHHHHhcc----CCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHH
Q 015918           46 TENKLVGVDSRIEEILSLLGV----GLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~----~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  119 (398)
                      -...++|.+..+..+.+.+..    -.+  .....++..||.|||||.||+.++..+-+.-...+-+. ..+..      
T Consensus       489 L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~D-MSEy~------  561 (786)
T COG0542         489 LKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRID-MSEYM------  561 (786)
T ss_pred             HhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeec-hHHHH------
Confidence            445699999999999998741    111  34467888999999999999999998654322222221 11111      


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceE-EEEEeCCC--ChHhHHHHHccCC
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKV-LIVFDDVN--HPRQIEFLIGNLD  176 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~-LlvlDd~~--~~~~~~~l~~~l~  176 (398)
                        -..-.+.+.....+.-..+ .-..+-...+.+|+ +|.||+++  +++.+.-|+..+.
T Consensus       562 --EkHsVSrLIGaPPGYVGye-eGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlD  618 (786)
T COG0542         562 --EKHSVSRLIGAPPGYVGYE-EGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLD  618 (786)
T ss_pred             --HHHHHHHHhCCCCCCceec-cccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhc
Confidence              1222233333322211111 23344455566765 89999997  5666777776664

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.81  E-value=0.00048  Score=68.95  Aligned_cols=51  Identities=20%  Similarity=0.274  Sum_probs=41.9

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....++|....++++.+.+.... .....|+|+|++|+|||++|+.+.+...
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a-~~~~pvli~Ge~GtGK~~lA~~ih~~s~  244 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA-RSNSTVLLRGESGTGKELIAKAIHYLSP  244 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh-CcCCCEEEECCCCccHHHHHHHHHHhCC
Confidence            44589999999999999886544 4456788999999999999999987643

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.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.81  E-value=0.00014  Score=60.78  Aligned_cols=45  Identities=20%  Similarity=0.242  Sum_probs=34.8

Q ss_pred             ccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           50 LVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +||....++++.+.+.... .....|+|+|++|+||+.+|+.+.+.
T Consensus         1 liG~s~~m~~~~~~~~~~a-~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAA-SSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHT-TSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHh-CCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            4788888999888876544 44577889999999999999999875

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 ....

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.80  E-value=6.4e-05  Score=74.16  Aligned_cols=75  Identities=16%  Similarity=0.243  Sum_probs=49.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      +..+++.++||+|.||||||..++++-  .|. ++=++    ++...+...+-..+...+..+...             -
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa--GYs-VvEIN----ASDeRt~~~v~~kI~~avq~~s~l-------------~  383 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA--GYS-VVEIN----ASDERTAPMVKEKIENAVQNHSVL-------------D  383 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc--Cce-EEEec----ccccccHHHHHHHHHHHHhhcccc-------------c
Confidence            677999999999999999999999873  222 23333    444445555555554444333221             0


Q ss_pred             hCCceEEEEEeCCCC
Q 015918          150 LTRKKVLIVFDDVNH  164 (398)
Q Consensus       150 l~~~~~LlvlDd~~~  164 (398)
                      ..++|.+||+|+++-
T Consensus       384 adsrP~CLViDEIDG  398 (877)
T KOG1969|consen  384 ADSRPVCLVIDEIDG  398 (877)
T ss_pred             cCCCcceEEEecccC
Confidence            147899999999973

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.80  E-value=0.0018  Score=66.81  Aligned_cols=50  Identities=20%  Similarity=0.241  Sum_probs=40.5

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .-..++|+...++.+.+.+.... .....|.|+|++|+|||++|+.+.+.-
T Consensus       374 ~~~~liG~S~~~~~~~~~~~~~a-~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        374 EFGEIIGRSEAMYSVLKQVEMVA-QSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cccceeecCHHHHHHHHHHHHHh-CCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            34579999999999887776443 445678999999999999999998764

>PRK06921 hypothetical protein; Provisional

Probab=97.79  E-value=8.2e-05  Score=67.10  Aligned_cols=37  Identities=19%  Similarity=0.226  Sum_probs=30.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ....+.++|++|+|||.|+..+++.+.++ ...++|+.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            45679999999999999999999997765 45566665

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.0032  Score=62.48  Aligned_cols=164  Identities=15%  Similarity=0.084  Sum_probs=88.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK  148 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~  148 (398)
                      .....|.|.|+.|+|||+|++.+++.+...- -.+.++.+.  ......+..+...+                 ......
T Consensus       429 ~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs--~l~~~~~e~iQk~l-----------------~~vfse  489 (952)
T KOG0735|consen  429 FRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCS--TLDGSSLEKIQKFL-----------------NNVFSE  489 (952)
T ss_pred             cccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEech--hccchhHHHHHHHH-----------------HHHHHH
Confidence            5667899999999999999999999866432 222233311  11111233332222                 223334


Q ss_pred             hhCCceEEEEEeCCCChH---------------hHHHHH----ccCCCCCCCcEEEEEeCChh-HHHhc----CCCeeEE
Q 015918          149 RLTRKKVLIVFDDVNHPR---------------QIEFLI----GNLDWFASGSRILITARDKQ-ALINC----GVNKIYQ  204 (398)
Q Consensus       149 ~l~~~~~LlvlDd~~~~~---------------~~~~l~----~~l~~~~~~~~iliTsR~~~-~~~~~----~~~~~~~  204 (398)
                      .+.-.|.+|+|||++...               -+..++    ..+........+|.|..+.. +.+.+    .......
T Consensus       490 ~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~  569 (952)
T KOG0735|consen  490 ALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIA  569 (952)
T ss_pred             HHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEe
Confidence            455678899999995211               011111    11111112223444443321 11111    2345678


Q ss_pred             cCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHHH
Q 015918          205 IKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILGR  254 (398)
Q Consensus       205 l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~~  254 (398)
                      |+++...+=.+++........  .....+..+.+...|+| .|.-++.+..
T Consensus       570 L~ap~~~~R~~IL~~~~s~~~--~~~~~~dLd~ls~~TEGy~~~DL~ifVe  618 (952)
T KOG0735|consen  570 LPAPAVTRRKEILTTIFSKNL--SDITMDDLDFLSVKTEGYLATDLVIFVE  618 (952)
T ss_pred             cCCcchhHHHHHHHHHHHhhh--hhhhhHHHHHHHHhcCCccchhHHHHHH
Confidence            999988888888876553222  22233446668888876 4666666553

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

Probab=97.79  E-value=0.00044  Score=71.14  Aligned_cols=52  Identities=19%  Similarity=0.210  Sum_probs=40.8

Q ss_pred             ccCcccccchhHHHHHHHhccC----CC--CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVG----LT--MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~----~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      -...++|.+..++.|...+...    .+  .....+.++||+|+|||++|+.+++.+.
T Consensus       456 L~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        456 LKMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             hcceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456899999999999987621    10  2235789999999999999999998874

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.78  E-value=0.0002  Score=66.49  Aligned_cols=36  Identities=19%  Similarity=0.289  Sum_probs=30.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+.++|++|+|||.|+..+++.+..+...++|++
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            367999999999999999999999776665667765

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.78  E-value=9.1e-05  Score=63.89  Aligned_cols=106  Identities=13%  Similarity=0.134  Sum_probs=57.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR  152 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  152 (398)
                      ..++|.||+|+||||++..++..+.......++..    ..+...   .... ...+..............+.+...+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~----e~~~E~---~~~~-~~~~i~q~~vg~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI----EDPIEF---VHES-KRSLINQREVGLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE----cCCccc---cccC-ccceeeecccCCCccCHHHHHHHHhcC
Confidence            47899999999999999998888765443333332    111000   0000 000000000001112245566677777


Q ss_pred             ceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeC
Q 015918          153 KKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       153 ~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      .+=+|++|++.+.+.........   ..+..++.|+-
T Consensus        74 ~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~H  107 (198)
T cd01131          74 DPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLH  107 (198)
T ss_pred             CcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEec
Confidence            78899999998776655544432   23444555553

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.76  E-value=0.00031  Score=60.40  Aligned_cols=111  Identities=18%  Similarity=0.182  Sum_probs=58.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCC
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMN  136 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~  136 (398)
                      .+.+...+.    ++.++++|+|++|+||||+++.+...+...-..++++...         ......+.......    
T Consensus         7 ~~a~~~~l~----~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT---------~~Aa~~L~~~~~~~----   69 (196)
T PF13604_consen    7 REAVRAILT----SGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPT---------NKAAKELREKTGIE----   69 (196)
T ss_dssp             HHHHHHHHH----CTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESS---------HHHHHHHHHHHTS-----
T ss_pred             HHHHHHHHh----cCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCc---------HHHHHHHHHhhCcc----
Confidence            334444444    3447899999999999999999988877664445554411         11111222222110    


Q ss_pred             CCCccchHHHHHhh----------CCceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeC
Q 015918          137 KFPNIGLNFQSKRL----------TRKKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       137 ~~~~~~~~~l~~~l----------~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                         ..-+..+....          ..+.-+||+|++.  +...+..++....  ..+.++|+..-
T Consensus        70 ---a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD  129 (196)
T PF13604_consen   70 ---AQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGD  129 (196)
T ss_dssp             ---EEEHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-
T ss_pred             ---hhhHHHHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECC
Confidence               00111111110          1223599999995  4456666666655  24778877764

>cd01394 radB RadB

Probab=97.75  E-value=0.00013  Score=64.09  Aligned_cols=50  Identities=22%  Similarity=0.250  Sum_probs=38.1

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..|-..|.+.- ....++.|+|++|+|||||+.+++.....+...++|+.
T Consensus         5 i~~LD~~l~GGi-~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           5 CKGLDELLGGGV-ERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             hhHHHHHhcCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344555565443 66789999999999999999999988765555677775

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

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.74  E-value=0.0014  Score=61.09  Aligned_cols=48  Identities=23%  Similarity=0.204  Sum_probs=39.6

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...++|+...++++.+.+.... .....|+|+|++|+||+++|+.+...
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a-~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLA-PLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHh-CCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            3468999999999999887554 44567889999999999999988754

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.74  E-value=0.00015  Score=67.49  Aligned_cols=101  Identities=14%  Similarity=0.138  Sum_probs=60.2

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE-EEeechhhhhcCCHHHHHHHHHHHHhcCCCCC
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY-FAHNVREAEETGKLADLRKELLSTLLNDGNMN  136 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~  136 (398)
                      .++.+.+...  ++.+.++|+|++|+|||||++.+++.+..+.+.+. ++..+  ......+.++...+...+...... 
T Consensus       121 ~RvID~l~Pi--GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lI--gER~~EV~df~~~i~~~Vvast~d-  195 (380)
T PRK12608        121 MRVVDLVAPI--GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLI--DERPEEVTDMRRSVKGEVYASTFD-  195 (380)
T ss_pred             Hhhhhheeec--CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEe--cCCCCCHHHHHHHHhhhEEeecCC-
Confidence            3456655533  34466789999999999999999998766543332 22211  223456677777777655443211 


Q ss_pred             CCCcc---c----hHHHHHh-hCCceEEEEEeCCC
Q 015918          137 KFPNI---G----LNFQSKR-LTRKKVLIVFDDVN  163 (398)
Q Consensus       137 ~~~~~---~----~~~l~~~-l~~~~~LlvlDd~~  163 (398)
                      .....   .    ......+ -.+++++||+|++.
T Consensus       196 e~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        196 RPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            11111   1    1111111 25789999999984

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.74  E-value=0.001  Score=63.99  Aligned_cols=56  Identities=16%  Similarity=0.230  Sum_probs=41.7

Q ss_pred             CcccccchhHHHHHHHhc-----cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           48 NKLVGVDSRIEEILSLLG-----VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~-----~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .++.--..-+.++..||.     .+. -+.+++.|+||+|+||||.++.++..+.  +...-|.
T Consensus        82 eeLAVHkkKI~eVk~WL~~~~~~~~~-l~~~iLLltGPsGcGKSTtvkvLskelg--~~~~Ew~  142 (634)
T KOG1970|consen   82 EELAVHKKKISEVKQWLKQVAEFTPK-LGSRILLLTGPSGCGKSTTVKVLSKELG--YQLIEWS  142 (634)
T ss_pred             HHHhhhHHhHHHHHHHHHHHHHhccC-CCceEEEEeCCCCCCchhHHHHHHHhhC--ceeeeec
Confidence            345555667888999987     333 5678999999999999999999998743  2334454

>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=97.73  E-value=3.4e-05  Score=67.68  Aligned_cols=36  Identities=19%  Similarity=0.441  Sum_probs=31.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +-.++|.|++|+|||||+..+...+...|..+++++
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            335779999999999999999999999997777665

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

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.73  E-value=2.1e-05  Score=63.78  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      |+|+|++|+|||+||+.+++.+...
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~~   26 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGRP   26 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhcc
Confidence            6899999999999999999998333

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.72  E-value=0.00078  Score=62.84  Aligned_cols=46  Identities=24%  Similarity=0.187  Sum_probs=36.9

Q ss_pred             ccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           50 LVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++|+...++.+.+.+.... .....|+|+|++|+||+++|+.+...-
T Consensus         1 liG~S~~m~~~~~~~~~~a-~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLA-PLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHh-CCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            5788888888888776544 455678999999999999999887653

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.72  E-value=0.0017  Score=64.54  Aligned_cols=51  Identities=22%  Similarity=0.326  Sum_probs=43.3

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....++|+...++++.+.+.... .....|.|+|++|+||+++|+.+.+...
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a-~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVA-ASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHh-CCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            56689999999999999887655 5567889999999999999999987643

>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=97.72  E-value=0.00024  Score=60.96  Aligned_cols=130  Identities=19%  Similarity=0.241  Sum_probs=60.8

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH--hhccCcceEEEeechhhhh-----cCCHHHHHHH
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK--ISRRFEGSYFAHNVREAEE-----TGKLADLRKE  124 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~--~~~~f~~~~~~~~~~~~~~-----~~~~~~~~~~  124 (398)
                      .+..+.+...+.|..     ..++++.|++|+|||.||...+-+  ...+|..+++.........     +.+..+-...
T Consensus         4 p~~~~Q~~~~~al~~-----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p   78 (205)
T PF02562_consen    4 PKNEEQKFALDALLN-----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEP   78 (205)
T ss_dssp             --SHHHHHHHHHHHH------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------T
T ss_pred             CCCHHHHHHHHHHHh-----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHH
Confidence            345555666666642     358999999999999999998865  3456777777653221111     1111111111


Q ss_pred             HHHHHhcCCCCCCCCccchHHHH----------HhhCCc---eEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeC
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQS----------KRLTRK---KVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~----------~~l~~~---~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      .+..+...... -......+.+.          .+++++   ..+||+|++.+  ..++..++..+   +.+++++++.-
T Consensus        79 ~~~p~~d~l~~-~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~---g~~skii~~GD  154 (205)
T PF02562_consen   79 YLRPIYDALEE-LFGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTRI---GEGSKIIITGD  154 (205)
T ss_dssp             TTHHHHHHHTT-TS-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB----TT-EEEEEE-
T ss_pred             HHHHHHHHHHH-HhChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHccc---CCCcEEEEecC
Confidence            11111110000 00111122221          123443   46999999965  45666666654   68999999885


Q ss_pred             C
Q 015918          190 D  190 (398)
Q Consensus       190 ~  190 (398)
                      .
T Consensus       155 ~  155 (205)
T PF02562_consen  155 P  155 (205)
T ss_dssp             -
T ss_pred             c
Confidence            3

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.71  E-value=0.00016  Score=63.85  Aligned_cols=49  Identities=22%  Similarity=0.266  Sum_probs=38.2

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..|-+.|.++- ....++.|+|++|+|||+||.+++.........++|+.
T Consensus        10 ~~lD~~l~GGi-~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         10 KMLDELLGGGF-ERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHHHhcCCC-CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            34555555443 56789999999999999999999988766666778877

>PRK09354 recA recombinase A; Provisional

Probab=97.71  E-value=0.0002  Score=66.38  Aligned_cols=80  Identities=16%  Similarity=0.176  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHhccccc-----c-ccCcccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           27 KLIEEIVSEVLERLDDTF-----E-TENKLVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        27 ~~i~~~~~~~~~~l~~~~-----~-~~~~fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +-++....++..+...-.     . .....---..-...|-..|. +.- +..+++.|+|++|+||||||.+++......
T Consensus         9 ~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~isTGi~~LD~~LG~GGi-p~G~IteI~G~~GsGKTtLal~~~~~~~~~   87 (349)
T PRK09354          9 KALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGL-PRGRIVEIYGPESSGKTTLALHAIAEAQKA   87 (349)
T ss_pred             HHHHHHHHHHHHHhCCCCceEcccccccCCceecCCcHHHHHHhcCCCC-cCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            345555666666543321     0 11112222334555666676 444 778899999999999999999999887666


Q ss_pred             CcceEEEe
Q 015918          100 FEGSYFAH  107 (398)
Q Consensus       100 f~~~~~~~  107 (398)
                      ...++|+.
T Consensus        88 G~~~~yId   95 (349)
T PRK09354         88 GGTAAFID   95 (349)
T ss_pred             CCcEEEEC
Confidence            67788887

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.70  E-value=0.0002  Score=63.57  Aligned_cols=50  Identities=24%  Similarity=0.236  Sum_probs=38.1

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..|-..|.++- +...++.|+|++|+|||+|+.+++.....+-..+.|+.
T Consensus        11 i~~LD~~l~gG~-~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         11 NEELDRKLGGGI-PFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             CHHHHHhhCCCC-cCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            344555565544 67889999999999999999999877545566677776

>PHA00729 NTP-binding motif containing protein

Probab=97.69  E-value=0.00044  Score=60.04  Aligned_cols=28  Identities=25%  Similarity=0.195  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+...++|+|++|+||||||..+++.+.
T Consensus        15 ~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         15 NGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4556799999999999999999998854

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.66  E-value=0.00024  Score=66.78  Aligned_cols=95  Identities=13%  Similarity=0.174  Sum_probs=55.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ....++|+|++|+||||+++.++..+.......++..    ..+   .+..... ...+................+...+
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti----Edp---~E~~~~~-~~~~i~q~evg~~~~~~~~~l~~~l  192 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI----EDP---IEYVHRN-KRSLINQREVGLDTLSFANALRAAL  192 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE----cCC---hhhhccC-ccceEEccccCCCCcCHHHHHHHhh
Confidence            3478999999999999999999887765444444443    111   0000000 0000011000011112456677778


Q ss_pred             CCceEEEEEeCCCChHhHHHHHc
Q 015918          151 TRKKVLIVFDDVNHPRQIEFLIG  173 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~~~~~~l~~  173 (398)
                      ...|=+|++|++.+.+.......
T Consensus       193 r~~pd~i~vgEird~~~~~~~l~  215 (343)
T TIGR01420       193 REDPDVILIGEMRDLETVELALT  215 (343)
T ss_pred             ccCCCEEEEeCCCCHHHHHHHHH
Confidence            88899999999987776654333

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.65  E-value=0.00015  Score=63.22  Aligned_cols=38  Identities=21%  Similarity=0.208  Sum_probs=33.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..+++.|+|++|+|||+|+.+++.........++|+.
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            66789999999999999999999988766666788887

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

>PTZ00494 tuzin-like protein; Provisional

Probab=97.65  E-value=0.01  Score=56.20  Aligned_cols=166  Identities=10%  Similarity=-0.014  Sum_probs=94.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..+..+|.|+.|-..+.+.|.......+++++++|..|+|||+|++...++  ++. -.+|+.    ...   .++.+..
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrk--E~~-paV~VD----VRg---~EDtLrs  437 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRV--EGV-ALVHVD----VGG---TEDTLRS  437 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHH--cCC-CeEEEE----ecC---CcchHHH
Confidence            577889999999999999998776678999999999999999999998766  222 255665    222   2333444


Q ss_pred             HHHHHhcCCCCC--CCCccchHHHH---HhhCCceEEEEEeCC--CChH-hHHHHHccCCCCCCCcEEEEEeCChhHHH-
Q 015918          125 LLSTLLNDGNMN--KFPNIGLNFQS---KRLTRKKVLIVFDDV--NHPR-QIEFLIGNLDWFASGSRILITARDKQALI-  195 (398)
Q Consensus       125 i~~~l~~~~~~~--~~~~~~~~~l~---~~l~~~~~LlvlDd~--~~~~-~~~~l~~~l~~~~~~~~iliTsR~~~~~~-  195 (398)
                      +.+.++-.....  +.-+...+...   ....++..+||+-==  .+.. .+.+... +...-.-|+|++----+.... 
T Consensus       438 VVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~va-LacDrRlCHvv~EVplESLT~~  516 (664)
T PTZ00494        438 VVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVVS-LVSDCQACHIVLAVPMKALTPL  516 (664)
T ss_pred             HHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHHH-HHccchhheeeeechHhhhchh
Confidence            445553321100  11111112221   123455556665432  2221 1121111 111123566665332221111 


Q ss_pred             --hcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          196 --NCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       196 --~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                        .+.....+.+++|+.+++-++.+..+
T Consensus       517 n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        517 NVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hccCccceeEecCCcCHHHHHHHHhccc
Confidence              11244678899999999998886654

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=0.00031  Score=65.23  Aligned_cols=100  Identities=22%  Similarity=0.295  Sum_probs=60.7

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcC-C
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLND-G  133 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~-~  133 (398)
                      .-+.++.+.|.+.- -...+++|-|.||+|||||..+++.++.++. .+.|++.      ..++.++... +..+... .
T Consensus        77 tg~~EldRVLGGG~-V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsG------EES~~QiklR-A~RL~~~~~  147 (456)
T COG1066          77 TGIEELDRVLGGGL-VPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSG------EESLQQIKLR-ADRLGLPTN  147 (456)
T ss_pred             CChHHHHhhhcCCc-ccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeC------CcCHHHHHHH-HHHhCCCcc
Confidence            33455556665433 3557899999999999999999999988777 6788762      2233322211 1222211 1


Q ss_pred             CCCCCCccchHHHHHhh-CCceEEEEEeCCC
Q 015918          134 NMNKFPNIGLNFQSKRL-TRKKVLIVFDDVN  163 (398)
Q Consensus       134 ~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~  163 (398)
                      ...-..+...+.+...+ ..+|-++|+|.+.
T Consensus       148 ~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQ  178 (456)
T COG1066         148 NLYLLAETNLEDIIAELEQEKPDLVVIDSIQ  178 (456)
T ss_pred             ceEEehhcCHHHHHHHHHhcCCCEEEEeccc
Confidence            11111222445555544 4578899999983

>PRK06696 uridine kinase; Validated

Probab=97.65  E-value=0.00011  Score=64.70  Aligned_cols=48  Identities=23%  Similarity=0.243  Sum_probs=38.9

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .|.+.+++|.+.+.....+++.+|+|.|++|+||||||..++..+...
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            466777888887764333678899999999999999999999988654

>PHA02244 ATPase-like protein

Probab=97.65  E-value=0.00048  Score=64.06  Aligned_cols=54  Identities=11%  Similarity=0.065  Sum_probs=35.8

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .-+..|+|....+......+.... .....+.|+|++|+|||+||+.+++.+...
T Consensus        93 ~~d~~~ig~sp~~~~~~~ri~r~l-~~~~PVLL~GppGtGKTtLA~aLA~~lg~p  146 (383)
T PHA02244         93 GIDTTKIASNPTFHYETADIAKIV-NANIPVFLKGGAGSGKNHIAEQIAEALDLD  146 (383)
T ss_pred             hCCCcccCCCHHHHHHHHHHHHHH-hcCCCEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            345567887766654433332211 223457889999999999999999885433

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.61  E-value=0.00023  Score=59.82  Aligned_cols=35  Identities=17%  Similarity=0.155  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.+.++|+||+||||+|+++++.+.++...++.+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~   36 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLE   36 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhhccccc
Confidence            46889999999999999999999888865555543

>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=97.60  E-value=5.6e-05  Score=59.55  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=21.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|.|++|+||||+|+.+++.+
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            58899999999999999999876

...

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.00093  Score=59.39  Aligned_cols=172  Identities=15%  Similarity=0.136  Sum_probs=88.9

Q ss_pred             CcccccchhHHHHHHHh----------ccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLL----------GVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L----------~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      +.+.|-+..-+.|.+..          .+.. ..-+-|+++||+|.|||.||+.++-....     .|++    ++.   
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR-~PwrgiLLyGPPGTGKSYLAKAVATEAnS-----TFFS----vSS---  199 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKR-KPWRGILLYGPPGTGKSYLAKAVATEANS-----TFFS----VSS---  199 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCC-CcceeEEEeCCCCCcHHHHHHHHHhhcCC-----ceEE----eeh---
Confidence            45777777777777754          2222 44688999999999999999999866432     2333    111   


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHH-hhCCceEEEEEeCCCC---------hHhHHH----HHccCC---CCCC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSK-RLTRKKVLIVFDDVNH---------PRQIEF----LIGNLD---WFAS  180 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlvlDd~~~---------~~~~~~----l~~~l~---~~~~  180 (398)
                       .+++..++   +       ..+-++..+.. .-.++|.+|+||+++.         .+..+.    |+-...   ....
T Consensus       200 -SDLvSKWm---G-------ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~  268 (439)
T KOG0739|consen  200 -SDLVSKWM---G-------ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDND  268 (439)
T ss_pred             -HHHHHHHh---c-------cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCC
Confidence             22222221   1       11112222222 2256899999999952         122222    221111   1123


Q ss_pred             CcEEEEEeCChhHHHh---cCCCeeEEcCCCChhhhH-HHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          181 GSRILITARDKQALIN---CGVNKIYQIKELVHVDAL-KLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       181 ~~~iliTsR~~~~~~~---~~~~~~~~l~~L~~~e~~-~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      +..|+-.|..+-+...   -+....|.+ ||....+. .+|.-++ + ..+....+.-..++.+.+.|..
T Consensus       269 gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhl-G-~tp~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  269 GVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHL-G-DTPHVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             ceEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheecc-C-CCccccchhhHHHHHhhcCCCC
Confidence            3334434443322111   112233444 45555555 3444443 2 3455555566888888887754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.60  E-value=0.00091  Score=62.71  Aligned_cols=38  Identities=18%  Similarity=0.222  Sum_probs=30.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .++++++|+|++|+||||++..++..+..+-..+.++.
T Consensus       239 ~~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~  276 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFIT  276 (436)
T ss_pred             cCCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEe
Confidence            34579999999999999999999988765544455554

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=0.0029  Score=59.68  Aligned_cols=26  Identities=19%  Similarity=0.330  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|--+++||||+|||+++.++++.+.
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~  260 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLN  260 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcC
Confidence            46788999999999999999998753

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.0019  Score=62.86  Aligned_cols=130  Identities=15%  Similarity=0.202  Sum_probs=71.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      .+.-|++|||+|+|||-||+.+++.-.-+|     ++..+        .+    +++....+     .+......+.+.-
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~NF-----isVKG--------PE----LlNkYVGE-----SErAVR~vFqRAR  601 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGANF-----ISVKG--------PE----LLNKYVGE-----SERAVRQVFQRAR  601 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCce-----EeecC--------HH----HHHHHhhh-----HHHHHHHHHHHhh
Confidence            456789999999999999999998865553     43111        11    11111111     1111222233333


Q ss_pred             CCceEEEEEeCCCCh-------------HhHHHHHccCCCC--CCCcEEEEEeCChh-HHHhc----CCCeeEEcCCCCh
Q 015918          151 TRKKVLIVFDDVNHP-------------RQIEFLIGNLDWF--ASGSRILITARDKQ-ALINC----GVNKIYQIKELVH  210 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~-------------~~~~~l~~~l~~~--~~~~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~  210 (398)
                      ..-|++|++|+++..             ..+..|+..+.-.  ..+..||-.|..++ +.+.+    .....+.++.-+.
T Consensus       602 ~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~  681 (802)
T KOG0733|consen  602 ASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNA  681 (802)
T ss_pred             cCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCH
Confidence            467999999999531             1233344444322  23455554443332 22211    2334556666677


Q ss_pred             hhhHHHHHHhhc
Q 015918          211 VDALKLLNQCAF  222 (398)
Q Consensus       211 ~e~~~Ll~~~~~  222 (398)
                      +|=.+++.....
T Consensus       682 ~eR~~ILK~~tk  693 (802)
T KOG0733|consen  682 EERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHHhc
Confidence            888888887764

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.58  E-value=0.00017  Score=66.29  Aligned_cols=52  Identities=19%  Similarity=0.139  Sum_probs=40.0

Q ss_pred             hhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-...|-..|. +.- +..+++.|+||+|+||||||.+++.........++|+.
T Consensus        38 TGi~~LD~~Lg~GGl-p~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          38 TGSLSLDIALGIGGY-PKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             CCCHHHHHHhcCCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            33445556665 444 67889999999999999999999988766666677876

RecA couples ATP hydrolysis to DNA strand exchange.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.57  E-value=0.00036  Score=68.40  Aligned_cols=152  Identities=18%  Similarity=0.176  Sum_probs=79.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ..++-|+++||||+|||++|+.+++.-.-.|     +...        ..    +++.....     ..+....+.....
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~nF-----lsvk--------gp----EL~sk~vG-----eSEr~ir~iF~kA  523 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMNF-----LSVK--------GP----ELFSKYVG-----ESERAIREVFRKA  523 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCCe-----eecc--------CH----HHHHHhcC-----chHHHHHHHHHHH
Confidence            5678899999999999999999998755553     2210        01    11111211     1111122222333


Q ss_pred             hCCceEEEEEeCCCChH-------------hHHHHHccCCCC--CCCcEEEE-EeCChhHHHhc-C---CCeeEEcCCCC
Q 015918          150 LTRKKVLIVFDDVNHPR-------------QIEFLIGNLDWF--ASGSRILI-TARDKQALINC-G---VNKIYQIKELV  209 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~-------------~~~~l~~~l~~~--~~~~~ili-TsR~~~~~~~~-~---~~~~~~l~~L~  209 (398)
                      =+--|++|+||+++...             .+..++..+.-.  ..+..||. |.|...+...+ +   ....+.+++-+
T Consensus       524 R~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD  603 (693)
T KOG0730|consen  524 RQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPD  603 (693)
T ss_pred             hhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCcc
Confidence            34467999999996322             123333333322  22333333 33433222221 2   33456666666


Q ss_pred             hhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          210 HVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       210 ~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      .+.-.++|..++..-...+.   --.+++++.+.|.-
T Consensus       604 ~~aR~~Ilk~~~kkmp~~~~---vdl~~La~~T~g~S  637 (693)
T KOG0730|consen  604 LEARLEILKQCAKKMPFSED---VDLEELAQATEGYS  637 (693)
T ss_pred             HHHHHHHHHHHHhcCCCCcc---ccHHHHHHHhccCC
Confidence            66667888877633222221   12677777777654

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.56  E-value=0.013  Score=51.84  Aligned_cols=202  Identities=12%  Similarity=0.109  Sum_probs=116.6

Q ss_pred             ccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEeechh------hhh---
Q 015918           50 LVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAHNVRE------AEE---  114 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~~~~~------~~~---  114 (398)
                      ..++.+.-+.+......   ...+...++||+|.||-|.+..+.+.+-+      +-+...|.+....      .+.   
T Consensus        15 l~~~~e~~~~Lksl~~~---~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSST---GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             cccHHHHHHHHHHhccc---CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            55555555555555442   56788999999999999999999987433      1233344431110      000   


Q ss_pred             --------cCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceE-EEEEeCCCChH-----hHHHHHccCCCCCC
Q 015918          115 --------TGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKV-LIVFDDVNHPR-----QIEFLIGNLDWFAS  180 (398)
Q Consensus       115 --------~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~-LlvlDd~~~~~-----~~~~l~~~l~~~~~  180 (398)
                              ...-+-+..+++.++....+.+            ....+++ ++||-.+++..     .++..+...   ..
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~qie------------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkY---s~  156 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQIE------------TQGQRPFKVVVINEADELTRDAQHALRRTMEKY---SS  156 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcchh------------hccccceEEEEEechHhhhHHHHHHHHHHHHHH---hc
Confidence                    0111344555555554332211            0112333 77787776432     233333333   46


Q ss_pred             CcEEEEEeCCh--hHHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc
Q 015918          181 GSRILITARDK--QALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR  258 (398)
Q Consensus       181 ~~~iliTsR~~--~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~  258 (398)
                      .+++|+...+.  -+.+--+.+-.++++..+++|....+.+.+.......  ..+++.++++.++||-.-.-++...++-
T Consensus       157 ~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~l--p~~~l~rIa~kS~~nLRrAllmlE~~~~  234 (351)
T KOG2035|consen  157 NCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQL--PKELLKRIAEKSNRNLRRALLMLEAVRV  234 (351)
T ss_pred             CceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccC--cHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            78877644322  2222224566789999999999999988773333222  2688999999999987665555544432


Q ss_pred             -----------CCHHHHHHHHHHh
Q 015918          259 -----------KRKEVWENAISKL  271 (398)
Q Consensus       259 -----------~~~~~~~~~~~~l  271 (398)
                                 .+.-+|+.+..+.
T Consensus       235 ~n~~~~a~~~~i~~~dWe~~i~e~  258 (351)
T KOG2035|consen  235 NNEPFTANSQVIPKPDWEIYIQEI  258 (351)
T ss_pred             ccccccccCCCCCCccHHHHHHHH
Confidence                       1234676666554

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.00091  Score=66.34  Aligned_cols=152  Identities=16%  Similarity=0.152  Sum_probs=81.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ...+.+.++||+|+|||.||+.++......|     +....        .++...    ...     ..+..........
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~~f-----i~v~~--------~~l~sk----~vG-----esek~ir~~F~~A  331 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRF-----ISVKG--------SELLSK----WVG-----ESEKNIRELFEKA  331 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCCeE-----EEeeC--------HHHhcc----ccc-----hHHHHHHHHHHHH
Confidence            4556899999999999999999998654443     22100        011100    000     1111122333333


Q ss_pred             hCCceEEEEEeCCCCh-------------HhHHHHHccCC--CCCCCcEEEEEeCChhHHHhc-----CCCeeEEcCCCC
Q 015918          150 LTRKKVLIVFDDVNHP-------------RQIEFLIGNLD--WFASGSRILITARDKQALINC-----GVNKIYQIKELV  209 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~-------------~~~~~l~~~l~--~~~~~~~iliTsR~~~~~~~~-----~~~~~~~l~~L~  209 (398)
                      .+..+++|++|+++..             .....++..+.  ....++.||-+|-.+......     +....+.+++-+
T Consensus       332 ~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         332 RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCC
Confidence            4578999999999521             12333333332  123344455555443222211     234577888889


Q ss_pred             hhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC
Q 015918          210 HVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG  244 (398)
Q Consensus       210 ~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g  244 (398)
                      .++-.++|..+......+ ....-....+++.+.|
T Consensus       412 ~~~r~~i~~~~~~~~~~~-~~~~~~~~~l~~~t~~  445 (494)
T COG0464         412 LEERLEIFKIHLRDKKPP-LAEDVDLEELAEITEG  445 (494)
T ss_pred             HHHHHHHHHHHhcccCCc-chhhhhHHHHHHHhcC
Confidence            999999998887422221 1112224555555555

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.54  E-value=0.0004  Score=65.60  Aligned_cols=50  Identities=26%  Similarity=0.373  Sum_probs=38.3

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..|-+.|.+.- ....++.|.|++|+|||||+.+++.........+.|++
T Consensus        68 i~eLD~vLgGGi-~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          68 IEELDRVLGGGL-VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             CHHHHHhhcCCc-cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            445555565443 55679999999999999999999988766655677776

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.53  E-value=0.00022  Score=65.61  Aligned_cols=52  Identities=21%  Similarity=0.181  Sum_probs=39.9

Q ss_pred             hhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-+..|-..|. +.- +..+++.|+|++|+||||||.+++.........++|+.
T Consensus        38 TGi~~LD~~Lg~GGl-p~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        38 TGSLSLDLALGVGGL-PRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             CCCHHHHHHhcCCCC-cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            33455556665 444 77889999999999999999999988766666677876

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.

>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=97.51  E-value=0.00016  Score=62.03  Aligned_cols=36  Identities=17%  Similarity=0.217  Sum_probs=28.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++++++||.|+||||.+.+++.++..+-..+..++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis   36 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS   36 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence            468999999999999999999998776655566665

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 ....

>PRK14974 cell division protein FtsY; Provisional

Probab=97.49  E-value=0.00082  Score=62.45  Aligned_cols=36  Identities=17%  Similarity=0.181  Sum_probs=28.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ++.+++++|++|+||||++..++..+..+-..+.++
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li  174 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIA  174 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence            468999999999999999999998876653334443

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.49  E-value=0.00011  Score=68.06  Aligned_cols=50  Identities=16%  Similarity=0.262  Sum_probs=42.1

Q ss_pred             cccccchhHHHHHHHhccCC---CCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           49 KLVGVDSRIEEILSLLGVGL---TMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~---~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .++|-++.++++.+++....   ..+.++++|+||+|+||||||..+++.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            79999999999999986432   145688999999999999999999988643

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

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.49  E-value=0.0016  Score=66.35  Aligned_cols=156  Identities=12%  Similarity=0.088  Sum_probs=79.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      .+-++|+|++|+|||++++.++......|   +.+.    .      .++..    ....     .........+.....
T Consensus       185 ~~gill~G~~G~GKt~~~~~~a~~~~~~f---~~is----~------~~~~~----~~~g-----~~~~~~~~~f~~a~~  242 (644)
T PRK10733        185 PKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS----G------SDFVE----MFVG-----VGASRVRDMFEQAKK  242 (644)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHcCCCE---EEEe----h------HHhHH----hhhc-----ccHHHHHHHHHHHHh
Confidence            34599999999999999999988754432   1222    0      01100    0000     000011222223334


Q ss_pred             CceEEEEEeCCCChH----------------hHHHHHccCCCC--CCCcEEEEEeCChhHHH-hc----CCCeeEEcCCC
Q 015918          152 RKKVLIVFDDVNHPR----------------QIEFLIGNLDWF--ASGSRILITARDKQALI-NC----GVNKIYQIKEL  208 (398)
Q Consensus       152 ~~~~LlvlDd~~~~~----------------~~~~l~~~l~~~--~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L  208 (398)
                      ..|++|+||+++...                .+..++..+...  ..+..+|.||..+.... ..    .....+.++..
T Consensus       243 ~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~P  322 (644)
T PRK10733        243 AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLP  322 (644)
T ss_pred             cCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCC
Confidence            578999999996431                122232222211  23444555665543221 11    23456778888


Q ss_pred             ChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHH
Q 015918          209 VHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKIL  252 (398)
Q Consensus       209 ~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l  252 (398)
                      +.++-.+++..+..........   ....+++.+.| .+--|..+
T Consensus       323 d~~~R~~Il~~~~~~~~l~~~~---d~~~la~~t~G~sgadl~~l  364 (644)
T PRK10733        323 DVRGREQILKVHMRRVPLAPDI---DAAIIARGTPGFSGADLANL  364 (644)
T ss_pred             CHHHHHHHHHHHhhcCCCCCcC---CHHHHHhhCCCCCHHHHHHH
Confidence            8888888887776332211111   14456666655 33344433

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

Probab=97.49  E-value=0.00087  Score=58.47  Aligned_cols=173  Identities=14%  Similarity=0.175  Sum_probs=87.4

Q ss_pred             CcccccchhHHH---HHHHhccCCC---CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH
Q 015918           48 NKLVGVDSRIEE---ILSLLGVGLT---MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        48 ~~fvGR~~el~~---l~~~L~~~~~---~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .++||.+..-+.   |..+|..+..   =.++-|+.+||+|.|||-+|+.+++..+.-|   +.+.    +      .++
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~---l~vk----a------t~l  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL---LLVK----A------TEL  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce---EEec----h------HHH
Confidence            356777665444   4445543211   1357889999999999999999987744331   1111    0      111


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--------------hHhHHHHHccCCCC--CCCcEEE
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--------------PRQIEFLIGNLDWF--ASGSRIL  185 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--------------~~~~~~l~~~l~~~--~~~~~il  185 (398)
                          .......     .....-+.....-+.-||+++||+++.              .+....++..+...  ..|..-|
T Consensus       188 ----iGehVGd-----gar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         188 ----IGEHVGD-----GARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             ----HHHHhhh-----HHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence                1111000     000011122222345799999999853              22345555554322  2333333


Q ss_pred             EEeCChhHHHh---cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC
Q 015918          186 ITARDKQALIN---CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV  245 (398)
Q Consensus       186 iTsR~~~~~~~---~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~  245 (398)
                      ..|..++....   ...-..|+..--+.+|-.+++...+..-..+..   .-.+.+++.+.|.
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~---~~~~~~~~~t~g~  318 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD---ADLRYLAAKTKGM  318 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc---cCHHHHHHHhCCC
Confidence            33433322221   123345666666788888888776522111111   1156666676664

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

Probab=97.49  E-value=0.00067  Score=59.81  Aligned_cols=48  Identities=21%  Similarity=0.170  Sum_probs=35.4

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~  107 (398)
                      .|-..|.+.- ....++.|+|++|+|||+|+.+++.......      ..++|+.
T Consensus         7 ~lD~~l~GG~-~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           7 ALDELLGGGI-PTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHHhCCCC-cCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            3444454433 5678999999999999999999998754443      5567776

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.48  E-value=0.0021  Score=55.48  Aligned_cols=60  Identities=22%  Similarity=0.343  Sum_probs=45.3

Q ss_pred             ccCcccccchhHHHHHHHhc---cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           46 TENKLVGVDSRIEEILSLLG---VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~---~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-..++|-+...+.|.+.-.   .+  -...-|.+||..|+|||+|++.+...+..+....+=+.
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G--~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~  120 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEG--LPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVD  120 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcC--CcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEc
Confidence            34568898888888776432   11  45567899999999999999999999888876644443

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.48  E-value=0.0013  Score=66.33  Aligned_cols=177  Identities=16%  Similarity=0.164  Sum_probs=94.7

Q ss_pred             CcccccchhHHH---HHHHhccCCC------CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEE---ILSLLGVGLT------MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~---l~~~L~~~~~------~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      .++.|-++.-++   +..+|..+..      .-++-+.|+||||+|||-||+.++-.-     .+.|++.    +.    
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~sv----SG----  377 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSV----SG----  377 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeee----ch----
Confidence            456666655444   4445543211      346789999999999999999998652     2344541    11    


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcc-chHHHHHhhCCceEEEEEeCCCCh-----------------HhHHHHHccCCCC--
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNI-GLNFQSKRLTRKKVLIVFDDVNHP-----------------RQIEFLIGNLDWF--  178 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l~~~~~LlvlDd~~~~-----------------~~~~~l~~~l~~~--  178 (398)
                      .++.+    .+..      .... ..+.....-.+.|++|.+|+++..                 ..+..++..+.-.  
T Consensus       378 SEFvE----~~~g------~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  378 SEFVE----MFVG------VGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             HHHHH----Hhcc------cchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC
Confidence            11111    1111      1111 122222223467899999998531                 1233333333211  


Q ss_pred             CCCcEEEEEeCChhHHHh--c---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          179 ASGSRILITARDKQALIN--C---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       179 ~~~~~iliTsR~~~~~~~--~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      ..+..++.+|...++...  +   +....+.++.-+...-.++|..++...... ....+... ++..+-|++=+.
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            233334444443333221  1   233557777778888888898887444433 23334444 888888877554

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.47  E-value=0.00042  Score=58.58  Aligned_cols=38  Identities=24%  Similarity=0.471  Sum_probs=31.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++++.|++|+||||+++.+++.+...+...+++.
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            45569999999999999999999999887776666654

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.46  E-value=0.0019  Score=53.01  Aligned_cols=118  Identities=14%  Similarity=0.113  Sum_probs=63.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHh--cCCC---C--CCCCcc----
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLL--NDGN---M--NKFPNI----  141 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~--~~~~---~--~~~~~~----  141 (398)
                      ..|.|++.+|.||||+|...+-+...+-..+.++..+.... ......++..+ ..+.  ..+.   .  ....+.    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~-~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~a   80 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGW-KYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAAA   80 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCC-ccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHHH
Confidence            47889999999999999999988666666666665443321 12222222222 1110  0000   0  000010    


Q ss_pred             --chHHHHHhhC-CceEEEEEeCCC-----ChHhHHHHHccCCCCCCCcEEEEEeCChh
Q 015918          142 --GLNFQSKRLT-RKKVLIVFDDVN-----HPRQIEFLIGNLDWFASGSRILITARDKQ  192 (398)
Q Consensus       142 --~~~~l~~~l~-~~~~LlvlDd~~-----~~~~~~~l~~~l~~~~~~~~iliTsR~~~  192 (398)
                        ........+. +.-=|+|||++-     ..-+.+.+...+........+|+|+|+.+
T Consensus        81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence              1112222233 344599999983     22233444444444466788999999864

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.45  E-value=0.00017  Score=58.25  Aligned_cols=35  Identities=29%  Similarity=0.363  Sum_probs=28.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEE
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFA  106 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~  106 (398)
                      .--++|+|+||+||||++..+.+.++++ |...-|+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~   40 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFI   40 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEE
Confidence            3468899999999999999999998777 5444443

>PRK07261 topology modulation protein; Provisional

Probab=97.45  E-value=0.00056  Score=57.47  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|+|++|+||||||+.++...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>PRK08118 topology modulation protein; Reviewed

Probab=97.45  E-value=0.00014  Score=60.82  Aligned_cols=24  Identities=33%  Similarity=0.547  Sum_probs=21.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|+|++|+||||||+.+++.+.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998854

>TIGR00416 sms DNA repair protein RadA

Probab=97.42  E-value=0.00068  Score=65.94  Aligned_cols=54  Identities=19%  Similarity=0.269  Sum_probs=41.3

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      -..-+..|-+.|.+.- ....+++|.|++|+|||||+.+++.....+...+.|++
T Consensus        76 i~TGi~~LD~vLgGGi-~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        76 FSSGFGELDRVLGGGI-VPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cccCcHHHHHHhcCCc-cCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3444566667676544 66789999999999999999999988765545577776

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)).

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.00094  Score=63.94  Aligned_cols=42  Identities=26%  Similarity=0.246  Sum_probs=31.4

Q ss_pred             chhHHHHHHHhccCCC------CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           54 DSRIEEILSLLGVGLT------MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~------~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..|++++.++|..+..      .-++-|+++||||.|||-||+.++-.
T Consensus       313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            3566777777764321      34577999999999999999999754

>PRK07667 uridine kinase; Provisional

Probab=97.40  E-value=0.00045  Score=59.30  Aligned_cols=43  Identities=19%  Similarity=0.290  Sum_probs=33.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ++.|.+.+.... +...+|+|.|++|+||||+|..+...+....
T Consensus         3 ~~~~~~~~~~~~-~~~~iIgI~G~~gsGKStla~~L~~~l~~~~   45 (193)
T PRK07667          3 TNELINIMKKHK-ENRFILGIDGLSRSGKTTFVANLKENMKQEG   45 (193)
T ss_pred             HHHHHHHHHhcC-CCCEEEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            345666665444 5568999999999999999999999876543

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.40  E-value=0.00093  Score=59.29  Aligned_cols=47  Identities=21%  Similarity=0.258  Sum_probs=34.0

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEe
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAH  107 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~  107 (398)
                      |-..|.+.- ....++.|+|++|+|||+|+.+++......      ...++|+.
T Consensus         8 lD~~l~GGi-~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123           8 LDELLGGGI-ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             hHhhccCCC-CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            344444433 567899999999999999999998663222      25677876

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 .

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.39  E-value=0.0013  Score=54.75  Aligned_cols=121  Identities=13%  Similarity=0.030  Sum_probs=62.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCC--CCCcc-------
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMN--KFPNI-------  141 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~-------  141 (398)
                      ....+.|++..|.||||.|..++.+...+-..+..+..+.... .......+..+.-.+...+...  ...+.       
T Consensus         4 ~~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~-~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         4 ERGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAW-PNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             cccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCc-ccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            3468889999999999999999988666655554444333221 1122223322210111111100  00010       


Q ss_pred             --chHHHHHhhCC-ceEEEEEeCCC-----ChHhHHHHHccCCCCCCCcEEEEEeCChh
Q 015918          142 --GLNFQSKRLTR-KKVLIVFDDVN-----HPRQIEFLIGNLDWFASGSRILITARDKQ  192 (398)
Q Consensus       142 --~~~~l~~~l~~-~~~LlvlDd~~-----~~~~~~~l~~~l~~~~~~~~iliTsR~~~  192 (398)
                        ..+.....+.. .-=++|||++.     ..-+.+.+...+...++...||+|.|+.+
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence              12222233333 34499999983     22223333334444467789999999863

Alternate name: corrinoid adenosyltransferase.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.37  E-value=0.00092  Score=60.30  Aligned_cols=92  Identities=12%  Similarity=0.058  Sum_probs=54.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ....++|.|+.|+||||++..+...+......++.+.+..+..    ..    .+ .++.   ............+...+
T Consensus        79 ~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~----~~----~~-~q~~---v~~~~~~~~~~~l~~~l  146 (264)
T cd01129          79 PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQ----IP----GI-NQVQ---VNEKAGLTFARGLRAIL  146 (264)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceec----CC----Cc-eEEE---eCCcCCcCHHHHHHHHh
Confidence            4468999999999999999999887654322333332111110    00    00 0000   00011112556677778


Q ss_pred             CCceEEEEEeCCCChHhHHHHHcc
Q 015918          151 TRKKVLIVFDDVNHPRQIEFLIGN  174 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~~~~~~l~~~  174 (398)
                      +..|=.|+++++.+.+....+...
T Consensus       147 R~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         147 RQDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             ccCCCEEEeccCCCHHHHHHHHHH
Confidence            888889999999888765554444

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.37  E-value=0.00091  Score=64.99  Aligned_cols=52  Identities=21%  Similarity=0.272  Sum_probs=39.3

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-+..|-+.|.+.- ....++.|.|++|+|||||+.+++.....+...++|++
T Consensus        64 TGi~~LD~~LgGGi-~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         64 TGIGELDRVLGGGL-VPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             CCcHHHHHHhcCCc-cCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34556666666544 55679999999999999999999988765545677776

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=97.37  E-value=0.0064  Score=62.35  Aligned_cols=50  Identities=16%  Similarity=0.218  Sum_probs=40.1

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .-+.++|....++++.+.+.... .....|.|+|++|+||+++|+.+.+..
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~a-~~~~pvli~Ge~GtGK~~~A~~ih~~s  372 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAA-KSSFPVLLCGEEGVGKALLAQAIHNES  372 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHHh-CcCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            34569999999999888776544 344568899999999999999987763

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.37  E-value=0.00073  Score=56.64  Aligned_cols=36  Identities=22%  Similarity=0.151  Sum_probs=28.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh-ccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS-RRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~-~~f~~~~~~~  107 (398)
                      ...+.+.||+|+|||.||+.+++.+. +.....+-+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d   39 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRID   39 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHh
Confidence            35788999999999999999999987 4544344443

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.36  E-value=0.0014  Score=60.49  Aligned_cols=50  Identities=14%  Similarity=0.177  Sum_probs=35.9

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh------ccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS------RRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~------~~f~~~~~~~  107 (398)
                      ...|-..|.++- +...++-|+|++|+|||+|+.+++-...      ..-..++|+.
T Consensus        82 ~~~LD~lLgGGi-~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYId  137 (313)
T TIGR02238        82 SQALDGILGGGI-ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYID  137 (313)
T ss_pred             CHHHHHHhCCCC-cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEE
Confidence            445555666544 6778899999999999999999885422      1234677876

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=97.36  E-value=0.014  Score=58.07  Aligned_cols=50  Identities=22%  Similarity=0.216  Sum_probs=38.7

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-..++|....++++.+.+.... .....|.|+|++|+||+.+|+.+...
T Consensus       201 ~~f~~~ig~s~~~~~~~~~~~~~A-~~~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        201 SAFSQIVAVSPKMRQVVEQARKLA-MLDAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             ccccceeECCHHHHHHHHHHHHHh-CCCCCEEEECCCCccHHHHHHHHHHh
Confidence            455579999999988888775333 34456889999999999999996543

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

Probab=97.31  E-value=0.00052  Score=60.27  Aligned_cols=51  Identities=22%  Similarity=0.228  Sum_probs=34.6

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +-.++...+.... ++..+|+|+|+||+|||||...+...+..+-..+..+.
T Consensus        14 ~~~~ll~~l~~~~-g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA   64 (266)
T PF03308_consen   14 EARELLKRLYPHT-GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA   64 (266)
T ss_dssp             HHHHHHHHHGGGT-T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             HHHHHHHHHHhhc-CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence            3344555554433 56789999999999999999999999876654444443

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.31  E-value=0.0031  Score=60.83  Aligned_cols=37  Identities=16%  Similarity=0.161  Sum_probs=29.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.++.++|++|+||||++..++..+..+...+..+.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~  130 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA  130 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence            4678999999999999999999998876543344443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.30  E-value=0.001  Score=59.09  Aligned_cols=50  Identities=18%  Similarity=0.172  Sum_probs=38.8

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..|-+.|.++- +...+++|.|++|+|||+|+.+++.....+...++|++
T Consensus         7 i~~LD~~l~GG~-~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         7 IPGMDEILHGGI-PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             cHhHHHHhcCCC-cCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            345556666555 67889999999999999999999887545566677776

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=97.29  E-value=0.00066  Score=59.75  Aligned_cols=38  Identities=13%  Similarity=-0.026  Sum_probs=31.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+..+++|.|++|+|||+|+.+++.....+...++|++
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            56679999999999999999999988655555566765

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.29  E-value=0.0021  Score=54.64  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=20.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|.|++|+||||+|+.+++.+
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998875

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.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.28  E-value=0.041  Score=55.44  Aligned_cols=99  Identities=22%  Similarity=0.270  Sum_probs=55.1

Q ss_pred             cccccCcccccchhHH-HHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechh
Q 015918           43 TFETENKLVGVDSRIE-EILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE  111 (398)
Q Consensus        43 ~~~~~~~fvGR~~el~-~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~  111 (398)
                      .|....+=||=-++++ +|.+.++-          +. .+..-|.++||+|+|||-||+.++-...-.     |++..+ 
T Consensus       666 IPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssgl-rkRSGILLYGPPGTGKTLlAKAVATEcsL~-----FlSVKG-  738 (953)
T KOG0736|consen  666 IPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGL-RKRSGILLYGPPGTGKTLLAKAVATECSLN-----FLSVKG-  738 (953)
T ss_pred             CCccchhcccCHHHHHHHHHHHhcCcccChhhhhccc-cccceeEEECCCCCchHHHHHHHHhhceee-----EEeecC-
Confidence            3345555555544444 45555432          22 335678899999999999999998664333     333111 


Q ss_pred             hhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC
Q 015918          112 AEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH  164 (398)
Q Consensus       112 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~  164 (398)
                             .    ++++.-..     +.++-..+...+.-...||+|++|++++
T Consensus       739 -------P----ELLNMYVG-----qSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  739 -------P----ELLNMYVG-----QSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             -------H----HHHHHHhc-----chHHHHHHHHHHhhccCCeEEEeccccc
Confidence                   1    11111111     1111133333334456899999999964

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=97.26  E-value=0.00086  Score=63.10  Aligned_cols=102  Identities=20%  Similarity=0.266  Sum_probs=60.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ..++-+-|||+.|.|||-|+..+++.+..+-...+.+.            .++.++-..+....    .....+..+...
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh------------~Fm~~vh~~l~~~~----~~~~~l~~va~~  123 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH------------EFMLDVHSRLHQLR----GQDDPLPQVADE  123 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCcccccccccc------------HHHHHHHHHHHHHh----CCCccHHHHHHH
Confidence            56788999999999999999999998655333233322            23333333332221    111134455566


Q ss_pred             hCCceEEEEEeCCC--ChHh---HHHHHccCCCCCCCcEEEEEeC
Q 015918          150 LTRKKVLIVFDDVN--HPRQ---IEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       150 l~~~~~LlvlDd~~--~~~~---~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      +.++..||+||+++  +..+   +..++..+.  ..|..++.||.
T Consensus       124 l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN  166 (362)
T PF03969_consen  124 LAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSN  166 (362)
T ss_pred             HHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCC
Confidence            67777799999984  3332   344444433  35665555553

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

>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=97.26  E-value=0.00054  Score=56.01  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=30.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+|.|+|.+|+||||||+.+.+++......+.++.
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            468999999999999999999999988877777765

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 ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.24  E-value=0.0021  Score=58.22  Aligned_cols=38  Identities=21%  Similarity=0.294  Sum_probs=30.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.++++++|++|+||||++..++..+......+.++.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~  107 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA  107 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence            45688999999999999999999988766644455554

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=97.23  E-value=0.0027  Score=69.74  Aligned_cols=27  Identities=11%  Similarity=0.139  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..++-|+++||+|+|||.||+.++...
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhc
Confidence            346789999999999999999999873

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.20  E-value=0.00059  Score=54.22  Aligned_cols=42  Identities=14%  Similarity=0.139  Sum_probs=31.8

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++.+++.+.+.... ....++++.|+.|+|||||++.+++.+.
T Consensus         6 ~~t~~l~~~l~~~l-~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         6 KAMDKFGKAFAKPL-DFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            44555666555433 4556899999999999999999998853

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.

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

Probab=97.19  E-value=0.0015  Score=58.56  Aligned_cols=39  Identities=26%  Similarity=0.432  Sum_probs=32.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEee
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHN  108 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~  108 (398)
                      .+.+.++|.|++|+|||||+.++++..+.+|...+++..
T Consensus        67 g~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~  105 (274)
T cd01133          67 AKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAG  105 (274)
T ss_pred             ccCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEE
Confidence            456788999999999999999999998877766666653

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.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.18  E-value=0.0033  Score=56.22  Aligned_cols=107  Identities=12%  Similarity=0.116  Sum_probs=65.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .....|+|+||.|+||||........+.+++...+...    .++-..+..-...+..+--..    .......+.++..
T Consensus       123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI----EDPIE~vh~skkslI~QREvG----~dT~sF~~aLraA  194 (353)
T COG2805         123 SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI----EDPIEYVHESKKSLINQREVG----RDTLSFANALRAA  194 (353)
T ss_pred             CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe----cCchHhhhcchHhhhhHHHhc----ccHHHHHHHHHHH
Confidence            45679999999999999888888888777765544433    122222222222222221000    1111266778888


Q ss_pred             hCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEe
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITA  188 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTs  188 (398)
                      |++-|=+|++-+..+.+.+..-+..    ..-.++++.|
T Consensus       195 LReDPDVIlvGEmRD~ETi~~ALtA----AETGHLV~~T  229 (353)
T COG2805         195 LREDPDVILVGEMRDLETIRLALTA----AETGHLVFGT  229 (353)
T ss_pred             hhcCCCEEEEeccccHHHHHHHHHH----HhcCCEEEEe
Confidence            8888889999999888776654444    2334455555

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.18  E-value=0.001  Score=55.53  Aligned_cols=30  Identities=13%  Similarity=0.048  Sum_probs=23.6

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.|.|++|+|||++|.+++..   .....+|+.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~---~~~~~~y~a   31 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE---LGGPVTYIA   31 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh---cCCCeEEEE
Confidence            679999999999999999876   223456654

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.17  E-value=0.00097  Score=65.72  Aligned_cols=52  Identities=19%  Similarity=0.271  Sum_probs=41.8

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-+..|-+.|.+.- .+..+++|.|++|+|||||+.+++.....+...++|++
T Consensus       247 tGi~~lD~~lgGG~-~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       247 SGVVRLDEMCGGGF-FKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             CChHhHHHHhcCCc-cCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            44566777776655 67789999999999999999999998766666677765

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=97.17  E-value=0.017  Score=57.23  Aligned_cols=47  Identities=23%  Similarity=0.374  Sum_probs=39.1

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|....++.+.+.+..-. .....|.|+|++|+||+.+|+.+.+.
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A-~~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYA-RSDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-CCCCcEEEECCCCcCHHHHHHHHHHh
Confidence            459999999999988876433 44568999999999999999998865

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=97.17  E-value=0.005  Score=61.01  Aligned_cols=47  Identities=21%  Similarity=0.276  Sum_probs=39.1

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|....++++.+.+..-. .....|.|+|++|+||+.+|+.+.+.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A-~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYA-RSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-CCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            459999999999998876433 44568999999999999999999876

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.17  E-value=0.0018  Score=54.79  Aligned_cols=27  Identities=19%  Similarity=0.359  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....++|.|+.|+|||||++.++...
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            345689999999999999999998764

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.17  E-value=0.00052  Score=67.14  Aligned_cols=50  Identities=26%  Similarity=0.275  Sum_probs=42.2

Q ss_pred             cccccchhHHHHHHHh----ccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           49 KLVGVDSRIEEILSLL----GVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L----~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +++|-++.+++|.+.|    .+.. .+.++++++||+|+||||||+.+++.+...
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~-~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLE-EKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcC-CCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            6899999999999988    2333 567899999999999999999999876443

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

Probab=97.16  E-value=0.00073  Score=58.94  Aligned_cols=94  Identities=16%  Similarity=0.151  Sum_probs=53.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh------------------------ccCcceEEEeechhhh--------hcCC
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS------------------------RRFEGSYFAHNVREAE--------ETGK  117 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~------------------------~~f~~~~~~~~~~~~~--------~~~~  117 (398)
                      ...-.+.|.||+|+|||||.+.++--.+                        +++.--.|.+...++.        ....
T Consensus        27 ~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~l~l~~~~~~~~e  106 (248)
T COG1116          27 EKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVALGLELRGKSKAE  106 (248)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhheehhhccccchHh
Confidence            4456899999999999999999885311                        1111122222111110        0111


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCcc------chHHHHHhhCCceEEEEEeCCC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNI------GLNFQSKRLTRKKVLIVFDDVN  163 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~------~~~~l~~~l~~~~~LlvlDd~~  163 (398)
                      .......++...+..+..+..+..      +.-.+.+.+...|-++.+|+-.
T Consensus       107 ~~~~a~~~L~~VgL~~~~~~~P~qLSGGMrQRVaiARAL~~~P~lLLlDEPF  158 (248)
T COG1116         107 ARERAKELLELVGLAGFEDKYPHQLSGGMRQRVAIARALATRPKLLLLDEPF  158 (248)
T ss_pred             HHHHHHHHHHHcCCcchhhcCccccChHHHHHHHHHHHHhcCCCEEEEcCCc
Confidence            123455555555555554455544      4455566777888899999963

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.16  E-value=0.0055  Score=57.15  Aligned_cols=49  Identities=20%  Similarity=0.253  Sum_probs=34.4

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh------ccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS------RRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~------~~f~~~~~~~  107 (398)
                      ..|-..|.++- ....++-|+|++|+|||+|+.+++-...      .....++|+.
T Consensus       113 ~~LD~lLgGGi-~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyId  167 (344)
T PLN03187        113 QALDELLGGGI-ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYID  167 (344)
T ss_pred             HhHHhhcCCCC-CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEE
Confidence            34555555444 5678888999999999999999985432      1124678876

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

Probab=97.16  E-value=0.002  Score=54.31  Aligned_cols=25  Identities=16%  Similarity=0.214  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ....+++|.|+.|+|||||.+.+..
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhh
Confidence            4456899999999999999998853

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.

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

Probab=97.16  E-value=0.00087  Score=59.81  Aligned_cols=49  Identities=22%  Similarity=0.249  Sum_probs=37.8

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+|...+.... ++..+++|+|+||+|||||...+...+..+-..+..+.
T Consensus        38 ~~ll~~l~p~t-G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA   86 (323)
T COG1703          38 RELLRALYPRT-GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA   86 (323)
T ss_pred             HHHHHHHhhcC-CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence            34555554444 67889999999999999999999999877766555554

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

Probab=97.16  E-value=0.0016  Score=58.73  Aligned_cols=45  Identities=31%  Similarity=0.324  Sum_probs=37.7

Q ss_pred             HHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           62 SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        62 ~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.+.+.- +..++++|+|++|+|||+++.+++.........++|++
T Consensus        14 ~~l~GG~-p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          14 EILGGGL-PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HHhcCCC-cCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3344433 67889999999999999999999999888888888887

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.15  E-value=0.0025  Score=53.81  Aligned_cols=120  Identities=15%  Similarity=0.070  Sum_probs=64.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHh--cCCC---CCC-CCcc---
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLL--NDGN---MNK-FPNI---  141 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~--~~~~---~~~-~~~~---  141 (398)
                      ....+.|+|..|-||||.|...+-+...+-..+..+..+.... .......+..+ ..+.  ..+.   ... ..+.   
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~-~~GE~~~l~~l-~~v~~~~~g~~~~~~~~~~~e~~~   98 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAW-STGERNLLEFG-GGVEFHVMGTGFTWETQDRERDIA   98 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCC-ccCHHHHHhcC-CCcEEEECCCCCcccCCCcHHHHH
Confidence            3468999999999999999999988666655566655443321 11222222221 0010  0000   000 0001   


Q ss_pred             ----chHHHHHhhC-CceEEEEEeCCC-----ChHhHHHHHccCCCCCCCcEEEEEeCChh
Q 015918          142 ----GLNFQSKRLT-RKKVLIVFDDVN-----HPRQIEFLIGNLDWFASGSRILITARDKQ  192 (398)
Q Consensus       142 ----~~~~l~~~l~-~~~~LlvlDd~~-----~~~~~~~l~~~l~~~~~~~~iliTsR~~~  192 (398)
                          ..+.....+. ++-=++|||++.     ..-+.+++...+...+....||+|.|..+
T Consensus        99 ~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986         99 AAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                1222223333 344599999983     22223334444444467889999999763

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.15  E-value=0.0069  Score=57.01  Aligned_cols=38  Identities=21%  Similarity=0.273  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~  107 (398)
                      ....+++++||+|+||||++.+++......+  ..+.++.
T Consensus       135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit  174 (374)
T PRK14722        135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT  174 (374)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence            3467999999999999999999998854432  3455544

>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=97.14  E-value=0.0014  Score=59.14  Aligned_cols=35  Identities=14%  Similarity=0.073  Sum_probs=24.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.|+|+|.||+||||+|+++...+...-..+.++.
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~   36 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIIS   36 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEc
Confidence            47899999999999999999998877544455554

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

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

Probab=97.14  E-value=0.0034  Score=51.43  Aligned_cols=26  Identities=35%  Similarity=0.503  Sum_probs=22.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +++|+|.+|+||||+++.+...+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~~   26 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQR   26 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            47899999999999999999987543

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

>PTZ00035 Rad51 protein; Provisional

Probab=97.14  E-value=0.0057  Score=57.15  Aligned_cols=51  Identities=16%  Similarity=0.159  Sum_probs=36.3

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEe
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAH  107 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~  107 (398)
                      -...|-..|.++- +...++.|+|++|+|||+|+.+++....-      .-..++|+.
T Consensus       103 G~~~LD~lLgGGi-~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyId  159 (337)
T PTZ00035        103 GSTQLDKLLGGGI-ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYID  159 (337)
T ss_pred             CcHHHHHHhCCCC-CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEE
Confidence            3455666666544 67789999999999999999999865431      223456766

>PRK05439 pantothenate kinase; Provisional

Probab=97.13  E-value=0.0016  Score=59.69  Aligned_cols=39  Identities=28%  Similarity=0.299  Sum_probs=29.1

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +..++.....+.+-+|+|.|++|+||||+|+.+...+..
T Consensus        74 ~~~fl~~~~~~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         74 LEQFLGKNGQKVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             HHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            334443222266789999999999999999999887654

>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=97.13  E-value=0.0016  Score=52.98  Aligned_cols=105  Identities=16%  Similarity=0.124  Sum_probs=57.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ....+++|.|+.|+|||||++.++....- ....+++.......-...                  -+..+...-.+...
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~~~~~i~~~~~------------------lS~G~~~rv~lara   84 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWGSTVKIGYFEQ------------------LSGGEKMRLALAKL   84 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCCC-CceEEEECCeEEEEEEcc------------------CCHHHHHHHHHHHH
Confidence            34568999999999999999999876432 233333321000000000                  02222233444555


Q ss_pred             hCCceEEEEEeCCC---ChHhHHHHHccCCCCCCCcEEEEEeCChhHHH
Q 015918          150 LTRKKVLIVFDDVN---HPRQIEFLIGNLDWFASGSRILITARDKQALI  195 (398)
Q Consensus       150 l~~~~~LlvlDd~~---~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~  195 (398)
                      +-.++-++++|+-.   +......+...+...  +..++++|.+.....
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            66677899999973   333333333333222  246777777665443

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.13  E-value=0.0013  Score=62.96  Aligned_cols=54  Identities=13%  Similarity=0.175  Sum_probs=39.3

Q ss_pred             cccCcccccchhHHHHHHHhcc----C---------CCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLGV----G---------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~----~---------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .-...++|.+...+.+...+..    .         .......++++||+|+|||+||+.+++.+..
T Consensus        68 ~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~  134 (412)
T PRK05342         68 HLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV  134 (412)
T ss_pred             HHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            3445689999999988665521    0         0012367899999999999999999987643

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=97.13  E-value=0.006  Score=55.39  Aligned_cols=38  Identities=13%  Similarity=-0.050  Sum_probs=30.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ....+++|.|++|+|||||+.+++.....+ ...+.|++
T Consensus        28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            455689999999999999999999886544 55677776

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.12  E-value=0.0009  Score=60.27  Aligned_cols=38  Identities=18%  Similarity=0.237  Sum_probs=32.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +...++.|.|++|+|||+|+.+++.....+-..++|++
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            66789999999999999999999887555556677776

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.12  E-value=0.0079  Score=55.65  Aligned_cols=70  Identities=17%  Similarity=0.183  Sum_probs=44.7

Q ss_pred             chHHHHHHHHHHHHhccccccccCcccccchhHHHHHHHhc----------cCCCCCceEEEEEcCCCccHHHHHHHHHH
Q 015918           25 ESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLG----------VGLTMDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        25 ~~~~i~~~~~~~~~~l~~~~~~~~~fvGR~~el~~l~~~L~----------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ++.+++-+..++..+-+..  .=.++.|-.+..+-|.+.+.          +.. ..=+-++++||+|+|||-||+.++-
T Consensus       191 d~~Lve~lerdIl~~np~i--kW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gir-rPWkgvLm~GPPGTGKTlLAKAvAT  267 (491)
T KOG0738|consen  191 DADLVEALERDILQRNPNI--KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVAT  267 (491)
T ss_pred             hHHHHHHHHHHHhccCCCc--ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcc-cccceeeeeCCCCCcHHHHHHHHHH
Confidence            4455555555555544332  22456777766666666542          222 3447799999999999999999986


Q ss_pred             Hhh
Q 015918           95 KIS   97 (398)
Q Consensus        95 ~~~   97 (398)
                      .-.
T Consensus       268 Ec~  270 (491)
T KOG0738|consen  268 ECG  270 (491)
T ss_pred             hhc
Confidence            643

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.12  E-value=0.0034  Score=52.79  Aligned_cols=34  Identities=21%  Similarity=0.287  Sum_probs=27.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++++.|++|+||||++..++..+.+....+..+.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~   35 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA   35 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            5789999999999999999988776644444444

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.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.12  E-value=0.00041  Score=55.03  Aligned_cols=22  Identities=45%  Similarity=0.732  Sum_probs=20.6

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.+.+.+
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            6899999999999999999885

...

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

Probab=97.12  E-value=0.00085  Score=46.95  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=21.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +++|.|++|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999887

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.

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

Probab=97.11  E-value=0.0058  Score=51.02  Aligned_cols=55  Identities=11%  Similarity=0.219  Sum_probs=34.9

Q ss_pred             chHHHHHhhCCceEEEEEeCC----CChHhHHH--HHccCCCCCCCcEEEEEeCChhHHHhcC
Q 015918          142 GLNFQSKRLTRKKVLIVFDDV----NHPRQIEF--LIGNLDWFASGSRILITARDKQALINCG  198 (398)
Q Consensus       142 ~~~~l~~~l~~~~~LlvlDd~----~~~~~~~~--l~~~l~~~~~~~~iliTsR~~~~~~~~~  198 (398)
                      +.-.+.+..-++|-+++-|+-    +....|+-  ++..++  ..|..|+++|-+........
T Consensus       144 QRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein--r~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         144 QRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN--RLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh--hcCcEEEEEeccHHHHHhcc
Confidence            555666777889999999985    32222222  223332  45778999998887666543

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

Probab=97.11  E-value=0.00044  Score=56.10  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +|++.|++|+||||+|+.+.....
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            578999999999999999987754

...

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=97.10  E-value=0.018  Score=56.79  Aligned_cols=49  Identities=18%  Similarity=0.342  Sum_probs=39.6

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...++|+...++.+.+.+.... .....+.|+|++|+|||++|+.+.+..
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~~-~~~~~vli~Ge~GtGK~~lA~~ih~~s  185 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRLS-RSSISVLINGESGTGKELVAHALHRHS  185 (469)
T ss_pred             cccceecCHHHHHHHHHHHHHh-ccCCeEEEEeCCCCcHHHHHHHHHhcC
Confidence            3569999999999888776444 455678899999999999999887753

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.10  E-value=0.0017  Score=55.02  Aligned_cols=122  Identities=12%  Similarity=0.125  Sum_probs=61.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHH------HHHHHHHHHhcCCCCC------C
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD------LRKELLSTLLNDGNMN------K  137 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~------~~~~i~~~l~~~~~~~------~  137 (398)
                      .+..+++|.|+.|+|||||++.++..... ....+++... ... ......      ...+++..+.......      +
T Consensus        23 ~~G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~-~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          23 EAGEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGK-DLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCE-ECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            44568999999999999999999876432 2333444311 000 001111      1111222222111110      1


Q ss_pred             CCccchHHHHHhhCCceEEEEEeCCC---ChHhHHHHHccCCCC-CC-CcEEEEEeCChhHH
Q 015918          138 FPNIGLNFQSKRLTRKKVLIVFDDVN---HPRQIEFLIGNLDWF-AS-GSRILITARDKQAL  194 (398)
Q Consensus       138 ~~~~~~~~l~~~l~~~~~LlvlDd~~---~~~~~~~l~~~l~~~-~~-~~~iliTsR~~~~~  194 (398)
                      ..+...-.+...+-..|-++++|+-.   +....+.+...+... .. +..+|++|-+....
T Consensus       100 ~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         100 GGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            11113334445566788899999973   333333333333221 22 56788888766543

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.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.09  E-value=0.0056  Score=50.03  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .-.+.|+||+|+|||||.+.++.-.
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhcc
Confidence            3568899999999999999999853

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.0095  Score=59.24  Aligned_cols=152  Identities=20%  Similarity=0.144  Sum_probs=76.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      ..-|.++||+|+|||.||..++....-+     |++..       . .++    +.....     ..++...+...+.-.
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-----fisvK-------G-PEl----L~KyIG-----aSEq~vR~lF~rA~~  758 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-----FISVK-------G-PEL----LSKYIG-----ASEQNVRDLFERAQS  758 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-----EEEec-------C-HHH----HHHHhc-----ccHHHHHHHHHHhhc
Confidence            3568899999999999999998664322     34311       1 111    111111     111113444444556


Q ss_pred             CceEEEEEeCCCCh-------------HhHHHHHccCCC--CCCCcEEEE-EeCChhHHHhc-C--CC-eeEEcCCCChh
Q 015918          152 RKKVLIVFDDVNHP-------------RQIEFLIGNLDW--FASGSRILI-TARDKQALINC-G--VN-KIYQIKELVHV  211 (398)
Q Consensus       152 ~~~~LlvlDd~~~~-------------~~~~~l~~~l~~--~~~~~~ili-TsR~~~~~~~~-~--~~-~~~~l~~L~~~  211 (398)
                      -+||++++|++++.             .....++..+.-  .-.|.-|+. |||...+.+.+ +  .. ..+.-+.-+..
T Consensus       759 a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~  838 (952)
T KOG0735|consen  759 AKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEP  838 (952)
T ss_pred             cCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcH
Confidence            79999999999641             224445444432  123555554 55544332221 1  11 12222223444


Q ss_pred             hhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH
Q 015918          212 DALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA  248 (398)
Q Consensus       212 e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~  248 (398)
                      |=.++++........+.   .--.+-++..++|..-|
T Consensus       839 eRl~il~~ls~s~~~~~---~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  839 ERLEILQVLSNSLLKDT---DVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHHhhccCCcc---ccchHHHhhhcCCCchh
Confidence            55566654432111111   11266677777776643

>PF13245 AAA_19: Part of AAA domain

Probab=97.08  E-value=0.00088  Score=47.80  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++++|.|++|+|||+++.+....+.
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35788899999999966666665543

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

Probab=97.08  E-value=0.00052  Score=58.99  Aligned_cols=27  Identities=33%  Similarity=0.468  Sum_probs=24.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +|+|.|++|+||||||+.+...+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~   27 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRG   27 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccC
Confidence            589999999999999999999987543

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 ....

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.07  E-value=0.0033  Score=52.56  Aligned_cols=119  Identities=15%  Similarity=0.090  Sum_probs=58.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeech---hhhhcC--CHHHHHHHHHHHHhcCCCCCCCCccchH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVR---EAEETG--KLADLRKELLSTLLNDGNMNKFPNIGLN  144 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~---~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~  144 (398)
                      .....++|.|+.|+|||||++.++..+.-. ...+++....   -..+..  ....+.+.+...   ....-+..+...-
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv  100 (166)
T cd03223          25 KPGDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRL  100 (166)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHHH
Confidence            345689999999999999999998764322 1222221000   001111  111222222110   1110022222444


Q ss_pred             HHHHhhCCceEEEEEeCCC---ChHhHHHHHccCCCCCCCcEEEEEeCChhHH
Q 015918          145 FQSKRLTRKKVLIVFDDVN---HPRQIEFLIGNLDWFASGSRILITARDKQAL  194 (398)
Q Consensus       145 ~l~~~l~~~~~LlvlDd~~---~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~  194 (398)
                      .+...+-.+|-++++|+-.   +......+...+...  +..+|++|.+....
T Consensus       101 ~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         101 AFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            4455566778899999973   333333333333222  35677777665443

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

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

Probab=97.07  E-value=0.00038  Score=53.49  Aligned_cols=25  Identities=24%  Similarity=0.525  Sum_probs=21.8

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      |.|+|++|+|||+||..++..+.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4699999999999999999886654

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

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

Probab=97.06  E-value=0.0033  Score=53.61  Aligned_cols=56  Identities=11%  Similarity=0.171  Sum_probs=34.9

Q ss_pred             chHHHHHhhCCceEEEEEeCCC---ChHhHHHHHccCCC-CCCCcEEEEEeCChhHHHhc
Q 015918          142 GLNFQSKRLTRKKVLIVFDDVN---HPRQIEFLIGNLDW-FASGSRILITARDKQALINC  197 (398)
Q Consensus       142 ~~~~l~~~l~~~~~LlvlDd~~---~~~~~~~l~~~l~~-~~~~~~iliTsR~~~~~~~~  197 (398)
                      +.-.+.+.|.-+|-++.+|+.-   +++...+.+..+.. ...+..+++.|-+...+...
T Consensus       143 QRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         143 QRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHh
Confidence            4555667778888899999984   44444443333221 14567788888776655543

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.06  E-value=0.0013  Score=58.89  Aligned_cols=27  Identities=26%  Similarity=0.423  Sum_probs=23.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .|+++|++|+||||+|+.+.+.+....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~~   27 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEKN   27 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            378999999999999999998876543

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.

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

Probab=97.06  E-value=0.0048  Score=53.61  Aligned_cols=55  Identities=15%  Similarity=0.222  Sum_probs=34.1

Q ss_pred             chHHHHHhhCCceEEEEEeCCC---ChH---hHHHHHccCCCCCCCcEEEEEeCChhHHHhc
Q 015918          142 GLNFQSKRLTRKKVLIVFDDVN---HPR---QIEFLIGNLDWFASGSRILITARDKQALINC  197 (398)
Q Consensus       142 ~~~~l~~~l~~~~~LlvlDd~~---~~~---~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~  197 (398)
                      +.-.+.+.+-..|-+|+.|+=-   +..   .+-.++..+.. ..+..+|+.|-++.++...
T Consensus       149 QRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         149 QRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHhC
Confidence            5556667788889999999852   222   22233333221 2366788888888777654

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.06  E-value=0.045  Score=49.71  Aligned_cols=127  Identities=9%  Similarity=-0.020  Sum_probs=70.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-------------CcceEEEeechhhhhcCCHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-------------FEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-------------f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      -++|...+..+  .-+....++|+.|+||+++|..+++.+-..             .+...++..... .......    
T Consensus         6 ~~~L~~~i~~~--rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~-~~~I~id----   78 (290)
T PRK05917          6 WEALIQRVRDQ--KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGK-GRLHSIE----   78 (290)
T ss_pred             HHHHHHHHHcC--CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCC-CCcCcHH----
Confidence            34556666543  235677799999999999999999875321             222222210000 0000111    


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHH
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALI  195 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~  195 (398)
                                        .+..+...+     .+..-++|||+++.  .+....++..+-..+++..+|++|.+. .+.+
T Consensus        79 ------------------qiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~  140 (290)
T PRK05917         79 ------------------TPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPP  140 (290)
T ss_pred             ------------------HHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcH
Confidence                              111222222     23445889999974  455667776666556666666666553 3433


Q ss_pred             h-cCCCeeEEcCCC
Q 015918          196 N-CGVNKIYQIKEL  208 (398)
Q Consensus       196 ~-~~~~~~~~l~~L  208 (398)
                      . .+.+..+.+.++
T Consensus       141 TI~SRcq~~~~~~~  154 (290)
T PRK05917        141 TIRSRSLSIHIPME  154 (290)
T ss_pred             HHHhcceEEEccch
Confidence            3 345677778775

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.05  E-value=0.0021  Score=53.96  Aligned_cols=28  Identities=21%  Similarity=0.280  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .....++|.|+.|+|||||++.++....
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~~   53 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLYD   53 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            4557899999999999999999987643

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.

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

Probab=97.04  E-value=0.0023  Score=56.59  Aligned_cols=93  Identities=16%  Similarity=0.093  Sum_probs=53.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEee-chhhhhcCCHHHHHHHHHHHHhcCC-CCC------CCCcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHN-VREAEETGKLADLRKELLSTLLNDG-NMN------KFPNI  141 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~~~~~i~~~l~~~~-~~~------~~~~~  141 (398)
                      .+..+++|+|.+|+||||+++.+..-..-....+.|-.. +...+ .....+...+++...+... ...      +....
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            455789999999999999999999875434333333210 11111 1122233444444443221 111      11222


Q ss_pred             chHHHHHhhCCceEEEEEeCCC
Q 015918          142 GLNFQSKRLTRKKVLIVFDDVN  163 (398)
Q Consensus       142 ~~~~l~~~l~~~~~LlvlDd~~  163 (398)
                      +.-.+.+.+.-+|-++|.|+.-
T Consensus       116 QRi~IARALal~P~liV~DEpv  137 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPV  137 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCch
Confidence            5556667788899999999974

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.04  E-value=0.0016  Score=55.49  Aligned_cols=33  Identities=27%  Similarity=0.193  Sum_probs=28.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|++|+|||+|+.+++......-..+.|++
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            679999999999999999988666666677776

A related protein is found in archaea.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.04  E-value=0.0011  Score=55.32  Aligned_cols=118  Identities=14%  Similarity=0.179  Sum_probs=60.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .....++|.|+.|+|||||++.++....- ....+++... ... .....+..   ......... -+..+...-.+...
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~-~~G~v~~~g~-~~~-~~~~~~~~---~~~i~~~~q-LS~G~~qrl~lara   96 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLYKP-DSGEILVDGK-EVS-FASPRDAR---RAGIAMVYQ-LSVGERQMVEIARA   96 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCE-ECC-cCCHHHHH---hcCeEEEEe-cCHHHHHHHHHHHH
Confidence            34568999999999999999999865432 2334444311 010 01111110   000100000 02222234444555


Q ss_pred             hCCceEEEEEeCCC---ChHhHHHHHccCCCC-CCCcEEEEEeCChhHH
Q 015918          150 LTRKKVLIVFDDVN---HPRQIEFLIGNLDWF-ASGSRILITARDKQAL  194 (398)
Q Consensus       150 l~~~~~LlvlDd~~---~~~~~~~l~~~l~~~-~~~~~iliTsR~~~~~  194 (398)
                      +-..|-++++|+-.   +....+.+...+... ..+..+|++|.+....
T Consensus        97 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216          97 LARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             HhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            66678899999973   333333333333211 2356788888776543

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.03  E-value=0.0037  Score=57.01  Aligned_cols=37  Identities=16%  Similarity=0.164  Sum_probs=28.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc-C-cceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR-F-EGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f-~~~~~~~  107 (398)
                      ..++++|+||+|+||||++..++..+..+ . ..+.++.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~  231 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT  231 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence            46799999999999999999999887544 2 3445544

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

Probab=97.03  E-value=0.00084  Score=57.12  Aligned_cols=36  Identities=17%  Similarity=0.275  Sum_probs=30.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .++++|+||+|+|||||+..++......|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceeec
Confidence            478999999999999999999999888886555554

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 ....

>PRK04328 hypothetical protein; Provisional

Probab=97.02  E-value=0.0024  Score=57.19  Aligned_cols=49  Identities=16%  Similarity=0.128  Sum_probs=37.3

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..|-+.|.++- +...++.|.|++|+|||+|+.+++.....+...++|++
T Consensus        10 ~~LD~lL~GGi-p~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         10 PGMDEILYGGI-PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hhHHHHhcCCC-cCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            34555565544 67789999999999999999999887545556677776

>PRK06762 hypothetical protein; Provisional

Probab=97.01  E-value=0.00072  Score=56.49  Aligned_cols=25  Identities=36%  Similarity=0.448  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.+++|+|++|+||||+|+.+++.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.00  E-value=0.00098  Score=58.82  Aligned_cols=47  Identities=28%  Similarity=0.287  Sum_probs=34.4

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      |-+.|.++- +...+++|.|++|+|||+|+.+++.....+ -..++|++
T Consensus         8 LD~~l~GGi-p~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    8 LDELLGGGI-PKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             HHHHTTTSE-ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             HHHhhcCCC-CCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            344454433 677899999999999999999999775555 56677776

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 ....

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=97.00  E-value=0.00052  Score=53.69  Aligned_cols=31  Identities=32%  Similarity=0.479  Sum_probs=21.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      +.|+|.+|+|||++|+.+++.+...|..+-+
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RIq~   32 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRIQF   32 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEEE-
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEEEe
Confidence            7899999999999999999998888765444

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.98  E-value=0.0013  Score=55.19  Aligned_cols=27  Identities=33%  Similarity=0.389  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+|+|.|++|+||||+++.+++.+
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            567899999999999999999999874

>PTZ00301 uridine kinase; Provisional

Probab=96.98  E-value=0.00078  Score=58.43  Aligned_cols=29  Identities=24%  Similarity=0.453  Sum_probs=24.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++.+|+|.|++|+||||||..+.+.+...
T Consensus         2 ~~~iIgIaG~SgSGKTTla~~l~~~l~~~   30 (210)
T PTZ00301          2 PCTVIGISGASGSGKSSLSTNIVSELMAH   30 (210)
T ss_pred             CCEEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence            35789999999999999999998876543

>PRK08233 hypothetical protein; Provisional

Probab=96.98  E-value=0.00068  Score=57.50  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+|+|.|++|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998864

>PRK04040 adenylate kinase; Provisional

Probab=96.98  E-value=0.00085  Score=57.24  Aligned_cols=29  Identities=24%  Similarity=0.428  Sum_probs=24.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ..+++|+|++|+||||+++.+++.+...+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~~~   30 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKEDY   30 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhccCC
Confidence            35899999999999999999999875333

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.98  E-value=0.0058  Score=55.07  Aligned_cols=97  Identities=22%  Similarity=0.111  Sum_probs=57.4

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHH-HhcCC--CCC
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLST-LLNDG--NMN  136 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~-l~~~~--~~~  136 (398)
                      |-..|.+.- +..+++=|+||.|+||||+|.+++-........++|+.    ......+.. ..++... +....  ..+
T Consensus        49 LD~~LGGGl-~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fID----tE~~l~p~r-~~~l~~~~~d~l~v~~~~  122 (279)
T COG0468          49 LDEALGGGL-PRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFID----TEHALDPER-AKQLGVDLLDNLLVSQPD  122 (279)
T ss_pred             HHHHhcCCc-ccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEe----CCCCCCHHH-HHHHHHhhhcceeEecCC
Confidence            344444433 77788999999999999999999988777777889987    333333332 3334444 21111  111


Q ss_pred             CCCcc--chHHHHHhhCCceEEEEEeCC
Q 015918          137 KFPNI--GLNFQSKRLTRKKVLIVFDDV  162 (398)
Q Consensus       137 ~~~~~--~~~~l~~~l~~~~~LlvlDd~  162 (398)
                      ...+.  .++.+.....++--|+|+|.+
T Consensus       123 ~~e~q~~i~~~~~~~~~~~i~LvVVDSv  150 (279)
T COG0468         123 TGEQQLEIAEKLARSGAEKIDLLVVDSV  150 (279)
T ss_pred             CHHHHHHHHHHHHHhccCCCCEEEEecC
Confidence            11111  233333333333559999998

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.97  E-value=0.038  Score=48.47  Aligned_cols=51  Identities=22%  Similarity=0.333  Sum_probs=38.4

Q ss_pred             ccCcccccchhHHHHHHHhccCC----------CCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL----------TMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~----------~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .-+.+=|-+..+++|.+.+.-+.          ...++-++++||+|.|||-+|+.-+.+.
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            33567788999999988763211          1456778999999999999999877653

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.97  E-value=0.0026  Score=57.91  Aligned_cols=28  Identities=25%  Similarity=0.200  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+-+|+|.|++|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            5678999999999999999988876654

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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.96  E-value=0.0094  Score=59.04  Aligned_cols=178  Identities=16%  Similarity=0.157  Sum_probs=89.8

Q ss_pred             cccCcccccchhHHHHHHHh---ccCCC------CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           45 ETENKLVGVDSRIEEILSLL---GVGLT------MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L---~~~~~------~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      ..-.+..|.++..+++.+.+   ..+..      .-++-+.++||+|+|||.||+.++-...-.     |+.    .|. 
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP-----Ff~----iSG-  216 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-----FFS----ISG-  216 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC-----cee----ccc-
Confidence            44456788877666666554   33220      235778999999999999999998653222     222    111 


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCcc-chHHHHHhhCCceEEEEEeCCCC----------------hHhHHHHHccCCCC
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNI-GLNFQSKRLTRKKVLIVFDDVNH----------------PRQIEFLIGNLDWF  178 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l~~~~~LlvlDd~~~----------------~~~~~~l~~~l~~~  178 (398)
                         .++. +++.         ..+.. ..+...+..++-|++|+||.++.                .+.+..++-...-.
T Consensus       217 ---S~FV-emfV---------GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF  283 (596)
T COG0465         217 ---SDFV-EMFV---------GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF  283 (596)
T ss_pred             ---hhhh-hhhc---------CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccC
Confidence               1110 1110         11111 33444555567789999999853                12334444333322


Q ss_pred             C--CCcEEEEEeCChhHHH-h----cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH
Q 015918          179 A--SGSRILITARDKQALI-N----CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA  248 (398)
Q Consensus       179 ~--~~~~iliTsR~~~~~~-~----~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~  248 (398)
                      .  .+..++..|..+++.. .    .+....+.++.-+...-.+++.-++........-  + ...+++.+-|.--+
T Consensus       284 ~~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~V--d-l~~iAr~tpGfsGA  357 (596)
T COG0465         284 GGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDV--D-LKKIARGTPGFSGA  357 (596)
T ss_pred             CCCCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcC--C-HHHHhhhCCCcccc
Confidence            2  2332332222222221 1    1233445555555556666666555333222111  1 34477787776543

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.95  E-value=0.0065  Score=52.24  Aligned_cols=27  Identities=26%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .-..|.||||+|||||.+.+++-+...
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            347789999999999999999886555

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.95  E-value=0.0027  Score=60.99  Aligned_cols=114  Identities=14%  Similarity=0.080  Sum_probs=69.3

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCC
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMN  136 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~  136 (398)
                      .+.+.+.+.    ....+++++||.|+||||....+...+......++-+.+.-+            .....+......+
T Consensus       247 ~~~~~~~~~----~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE------------~~~~gI~Q~qVN~  310 (500)
T COG2804         247 LARLLRLLN----RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVE------------YQLPGINQVQVNP  310 (500)
T ss_pred             HHHHHHHHh----CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCee------------eecCCcceeeccc
Confidence            334444444    456899999999999999999999987766655444331100            0011111111111


Q ss_pred             CCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          137 KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       137 ~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      ...-.....++..|+..|=+|++.++.+.+..+-.....    -.+++++||=.
T Consensus       311 k~gltfa~~LRa~LRqDPDvImVGEIRD~ETAeiavqAa----lTGHLVlSTlH  360 (500)
T COG2804         311 KIGLTFARALRAILRQDPDVIMVGEIRDLETAEIAVQAA----LTGHLVLSTLH  360 (500)
T ss_pred             ccCCCHHHHHHHHhccCCCeEEEeccCCHHHHHHHHHHH----hcCCeEeeecc
Confidence            222225677888889899999999998777655444442    24457777743

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.94  E-value=0.002  Score=56.88  Aligned_cols=38  Identities=11%  Similarity=-0.002  Sum_probs=30.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +....+.|.|++|+|||||+.+++.....+.....|++
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            55679999999999999999888887644445566665

>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=96.93  E-value=0.0012  Score=55.16  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=21.4

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++|+|++|+|||||++.+++.++..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~~   26 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKKK   26 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhcc
Confidence            7899999999999999999987543

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=96.92  E-value=0.0047  Score=52.89  Aligned_cols=82  Identities=17%  Similarity=0.130  Sum_probs=50.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEEEeechhhhhcCCHHHHHHHHHHH---HhcCCCCCCCCcc--ch
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYFAHNVREAEETGKLADLRKELLST---LLNDGNMNKFPNI--GL  143 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~i~~~---l~~~~~~~~~~~~--~~  143 (398)
                      +++-+++|+||.|+||||++..+...+..++ ..+...+    ++.-+....-...++.+   +......+..++.  ..
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lS----LDDlYlthadrl~La~q~npllq~RGlpGTHD~tlgl  123 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLS----LDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGL  123 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEee----hhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHH
Confidence            5678999999999999999999999987776 4555555    33323223333333333   2233333344554  55


Q ss_pred             HHHHHhhCCceE
Q 015918          144 NFQSKRLTRKKV  155 (398)
Q Consensus       144 ~~l~~~l~~~~~  155 (398)
                      +.+....++++.
T Consensus       124 nVLnai~~g~~~  135 (300)
T COG4240         124 NVLNAIARGGPT  135 (300)
T ss_pred             HHHHHHhcCCCC
Confidence            666666666544

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.91  E-value=0.33  Score=44.53  Aligned_cols=143  Identities=9%  Similarity=0.075  Sum_probs=82.0

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---------Cc-ceEEEeechhhhhcCCHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---------FE-GSYFAHNVREAEETGKLADLRKELL  126 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---------f~-~~~~~~~~~~~~~~~~~~~~~~~i~  126 (398)
                      ++.+.+.+..+  .-.++..++|+.|+||++++..+.+.+-..         .+ ...++..   ........++. ++.
T Consensus         5 ~~~l~~~i~~~--~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~---~g~~i~vd~Ir-~l~   78 (299)
T PRK07132          5 IKFLDNSATQN--KISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDI---FDKDLSKSEFL-SAI   78 (299)
T ss_pred             HHHHHHHHHhC--CCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEecc---CCCcCCHHHHH-HHH
Confidence            44555555442  245677799999999999999999886211         11 1222210   00112222221 222


Q ss_pred             HHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCCee
Q 015918          127 STLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVNKI  202 (398)
Q Consensus       127 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~~~  202 (398)
                      ..+....               .-.+.+=++|+|+++..  .....++..+...++.+.+|++|... .+.+. .+.+..
T Consensus        79 ~~~~~~~---------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~  143 (299)
T PRK07132         79 NKLYFSS---------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQV  143 (299)
T ss_pred             HHhccCC---------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEE
Confidence            2221110               00145668999999754  34556666666556677666655443 33332 356788


Q ss_pred             EEcCCCChhhhHHHHHHh
Q 015918          203 YQIKELVHVDALKLLNQC  220 (398)
Q Consensus       203 ~~l~~L~~~e~~~Ll~~~  220 (398)
                      +++.+++.++..+.+...
T Consensus       144 ~~f~~l~~~~l~~~l~~~  161 (299)
T PRK07132        144 FNVKEPDQQKILAKLLSK  161 (299)
T ss_pred             EECCCCCHHHHHHHHHHc
Confidence            999999999999887653

>PRK14531 adenylate kinase; Provisional

Probab=96.91  E-value=0.0035  Score=53.29  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.|+|.|++|+||||+++.+++.+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999998875

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.91  E-value=0.013  Score=56.60  Aligned_cols=36  Identities=17%  Similarity=0.163  Sum_probs=27.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh--ccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS--RRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~--~~f~~~~~~~  107 (398)
                      .+++++.||+|+||||++..++..+.  .....+.++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~  258 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT  258 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            46899999999999999999988765  3334455554

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.90  E-value=0.0079  Score=56.35  Aligned_cols=38  Identities=18%  Similarity=0.163  Sum_probs=30.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.++++|+||.|+||||++..++..+..+...+.++.
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            45689999999999999999999988755544555655

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.90  E-value=0.0024  Score=56.42  Aligned_cols=49  Identities=24%  Similarity=0.196  Sum_probs=36.4

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..|-+.+.+.- +....++|.|++|+|||+|+.+++.....+...++|++
T Consensus         7 ~~LD~~l~GGi-~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         7 EGLDKLLEGGI-PRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             hhHHHhhcCCC-cCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            34555554444 56789999999999999999998876545555677776

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.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.90  E-value=0.0026  Score=59.92  Aligned_cols=98  Identities=13%  Similarity=0.098  Sum_probs=54.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCc---ceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFE---GSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      ....++|+|+.|+||||+++.+++.+....+   .++.+.+..+    ....... ... ..................+.
T Consensus       133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE----~~~~~~~-~~~-~~v~Q~~v~~~~~~~~~~l~  206 (358)
T TIGR02524       133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIE----FVYDEIE-TIS-ASVCQSEIPRHLNNFAAGVR  206 (358)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCce----Eeccccc-ccc-ceeeeeeccccccCHHHHHH
Confidence            4579999999999999999999988754332   2222221111    0000000 000 00000000011112456667


Q ss_pred             HhhCCceEEEEEeCCCChHhHHHHHcc
Q 015918          148 KRLTRKKVLIVFDDVNHPRQIEFLIGN  174 (398)
Q Consensus       148 ~~l~~~~~LlvlDd~~~~~~~~~l~~~  174 (398)
                      ..++..|-.+++.++.+.+.....+..
T Consensus       207 ~aLR~~Pd~i~vGEiRd~et~~~al~a  233 (358)
T TIGR02524       207 NALRRKPHAILVGEARDAETISAALEA  233 (358)
T ss_pred             HHhccCCCEEeeeeeCCHHHHHHHHHH
Confidence            788888899999999888776544433

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.89  E-value=0.0025  Score=56.21  Aligned_cols=36  Identities=28%  Similarity=0.285  Sum_probs=25.0

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+.+...+..     ..+.+|+||||+|||+++..+...+
T Consensus         6 Q~~Ai~~~~~~-----~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    6 QREAIQSALSS-----NGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHCTS-----SE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-----CCCEEEECCCCCChHHHHHHHHHHh
Confidence            34455555532     2379999999999999888888877

>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=96.89  E-value=0.0032  Score=53.07  Aligned_cols=107  Identities=14%  Similarity=0.076  Sum_probs=56.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeec--hhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV--REAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQS  147 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~  147 (398)
                      ....+++|.|+.|+|||||++.++....-. ...+++...  .-..+...                  -+......-.+.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~-~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~la   83 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLIPN-GDNDEWDGITPVYKPQYID------------------LSGGELQRVAIA   83 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCC-CcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHH
Confidence            345689999999999999999988654322 223333210  00000000                  022222344445


Q ss_pred             HhhCCceEEEEEeCCC---ChHhHHHHHccCCCC--CCCcEEEEEeCChhHHH
Q 015918          148 KRLTRKKVLIVFDDVN---HPRQIEFLIGNLDWF--ASGSRILITARDKQALI  195 (398)
Q Consensus       148 ~~l~~~~~LlvlDd~~---~~~~~~~l~~~l~~~--~~~~~iliTsR~~~~~~  195 (398)
                      ..+..++-++++|+-.   +......+...+...  ..+..+|++|-+.....
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            5566778899999973   333322222222111  12255777776664443

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.89  E-value=0.0055  Score=53.40  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.++|+|+.|.|||||.+.+...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHH
Confidence            388999999999999999999853

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

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.89  E-value=0.001  Score=56.11  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++++++|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988753

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.89  E-value=0.001  Score=56.79  Aligned_cols=26  Identities=23%  Similarity=0.139  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++++|.|++|+||||+++.+++.+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998775

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.89  E-value=0.001  Score=57.87  Aligned_cols=27  Identities=30%  Similarity=0.539  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+..+|+|.|++|+|||||++.+...+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999887

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.88  E-value=0.001  Score=60.22  Aligned_cols=27  Identities=26%  Similarity=0.411  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+.+.++|++|+|||++++.+...+..
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~   59 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDS   59 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCc
Confidence            467899999999999999998876543

>PRK06217 hypothetical protein; Validated

Probab=96.86  E-value=0.0047  Score=52.49  Aligned_cols=24  Identities=25%  Similarity=0.533  Sum_probs=21.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|.|.+|+||||+++.+.+.+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            489999999999999999998863

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.85  E-value=0.0058  Score=52.00  Aligned_cols=44  Identities=16%  Similarity=0.163  Sum_probs=31.3

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.-|+|-...++.+.=-+     +..++..+.||+|+|||||.+.+-+-
T Consensus        13 l~~yYg~~~aL~~i~l~i-----~~~~VTAlIGPSGcGKST~LR~lNRm   56 (253)
T COG1117          13 LNLYYGDKHALKDINLDI-----PKNKVTALIGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             eeEEECchhhhccCceec-----cCCceEEEECCCCcCHHHHHHHHHhh
Confidence            345677555554443323     56689999999999999999987653

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.85  E-value=0.012  Score=53.12  Aligned_cols=117  Identities=13%  Similarity=0.118  Sum_probs=59.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCC---CCCCcc-chHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNM---NKFPNI-GLNFQ  146 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~-~~~~l  146 (398)
                      ....++|.|++|+|||||.+.++..+.... ..+++... .........++... ...+......   +-.... ....+
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~~~~~-G~i~~~g~-~v~~~d~~~ei~~~-~~~~~q~~~~~r~~v~~~~~k~~~~  186 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARILSTGI-SQLGLRGK-KVGIVDERSEIAGC-VNGVPQHDVGIRTDVLDGCPKAEGM  186 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCccCCCC-ceEEECCE-EeecchhHHHHHHH-hcccccccccccccccccchHHHHH
Confidence            356899999999999999999998765442 23333210 00000011111111 0011000000   000010 11122


Q ss_pred             HHhh-CCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhH
Q 015918          147 SKRL-TRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQA  193 (398)
Q Consensus       147 ~~~l-~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~  193 (398)
                      ...+ ...|-++++|+....+.+..+...+.   .+..+|+|+-....
T Consensus       187 ~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       187 MMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             HHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            2222 25788999999977666666655543   46778888865443

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.85  E-value=0.0062  Score=57.79  Aligned_cols=27  Identities=22%  Similarity=0.215  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+++++++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999998765

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.0035  Score=56.17  Aligned_cols=52  Identities=23%  Similarity=0.294  Sum_probs=35.5

Q ss_pred             cccccchhHHHHHHHhcc---------C-CCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           49 KLVGVDSRIEEILSLLGV---------G-LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~---------~-~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ++-|--..+.++.+.+.-         . ....+..++||||+|.|||-+|+.++....-+|
T Consensus       133 ~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  133 NVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             HhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            344555555555555421         0 114567899999999999999999998865553

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.84  E-value=0.0037  Score=59.02  Aligned_cols=96  Identities=14%  Similarity=0.041  Sum_probs=54.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCc-c-eEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFE-G-SYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ...++|+|+.|+||||++..++..+....+ . ++-+.+..+.... ...    .+....... .. .........+...
T Consensus       149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~-~~~----~~~~~~q~e-vg-~~~~~~~~~l~~a  221 (372)
T TIGR02525       149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILG-SPD----DLLPPAQSQ-IG-RDVDSFANGIRLA  221 (372)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccC-CCc----eeecccccc-cC-CCccCHHHHHHHh
Confidence            357899999999999999999888754332 2 2222211110000 000    000000000 00 1111245677778


Q ss_pred             hCCceEEEEEeCCCChHhHHHHHcc
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFLIGN  174 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l~~~  174 (398)
                      ++..|=.|+++++.+.+..+..+..
T Consensus       222 LR~~PD~I~vGEiRd~et~~~al~a  246 (372)
T TIGR02525       222 LRRAPKIIGVGEIRDLETFQAAVLA  246 (372)
T ss_pred             hccCCCEEeeCCCCCHHHHHHHHHH
Confidence            8889999999999988877654433

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).

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.84  E-value=0.057  Score=50.54  Aligned_cols=58  Identities=12%  Similarity=0.002  Sum_probs=38.6

Q ss_pred             CCeeEEcCCCChhhhHHHHHHhhcCCCCC-CcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          199 VNKIYQIKELVHVDALKLLNQCAFGRDHP-DASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       199 ~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~-~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ...++++++.+.+|+.+++.-........ ....++..+++.=.++|||..++.+|..+
T Consensus       402 pf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  402 PFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             CcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHHHHhc
Confidence            55778999999999999876544221111 00113446777778899998777777654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.84  E-value=0.0035  Score=59.32  Aligned_cols=53  Identities=23%  Similarity=0.258  Sum_probs=39.9

Q ss_pred             CcccccchhHHHHHHHhccC-----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           48 NKLVGVDSRIEEILSLLGVG-----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~-----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ..++|.++..+.+.-.+...           ..-.++.++++||+|+|||++|+.++..+...|
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            45889888888887666431           002346799999999999999999999875543

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.

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.83  E-value=0.0058  Score=60.22  Aligned_cols=34  Identities=24%  Similarity=0.379  Sum_probs=25.3

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .++|.+.+.     ..++|+|+|..|+||||-+.++++.
T Consensus       361 R~~ll~~ir-----~n~vvvivgETGSGKTTQl~QyL~e  394 (1042)
T KOG0924|consen  361 RDQLLSVIR-----ENQVVVIVGETGSGKTTQLAQYLYE  394 (1042)
T ss_pred             HHHHHHHHh-----hCcEEEEEecCCCCchhhhHHHHHh
Confidence            344445443     3469999999999999988887765

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.83  E-value=0.0029  Score=49.39  Aligned_cols=47  Identities=19%  Similarity=0.227  Sum_probs=35.6

Q ss_pred             ccccc----hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           50 LVGVD----SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        50 fvGR~----~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++|..    ..++.|.+.+......++-++..+|++|+|||.+++.+++.+
T Consensus        27 l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   27 LFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            45544    455666666666554677788899999999999999999884

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

>PRK15115 response regulator GlrR; Provisional

Probab=96.83  E-value=0.083  Score=51.68  Aligned_cols=49  Identities=18%  Similarity=0.188  Sum_probs=36.7

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...++|+...+..+.+...... .....+.|+|++|+|||++|+.+.+..
T Consensus       133 ~~~lig~s~~~~~~~~~~~~~a-~~~~~vli~Ge~GtGk~~lA~~ih~~s  181 (444)
T PRK15115        133 REAIVTRSPLMLRLLEQARMVA-QSDVSVLINGQSGTGKEILAQAIHNAS  181 (444)
T ss_pred             hhcccccCHHHHHHHHHHHhhc-cCCCeEEEEcCCcchHHHHHHHHHHhc
Confidence            3468899888887777554332 344568899999999999999887653

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.83  E-value=0.0012  Score=55.56  Aligned_cols=26  Identities=19%  Similarity=0.359  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....|+|+|++|+||||+++.+++.+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999999886

>TIGR00235 udk uridine kinase

Probab=96.82  E-value=0.0013  Score=57.27  Aligned_cols=28  Identities=29%  Similarity=0.469  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +...+++|.|++|+|||||++.++..+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5668999999999999999999998764

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

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.82  E-value=0.0025  Score=64.40  Aligned_cols=57  Identities=19%  Similarity=0.234  Sum_probs=43.4

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      .-++++|.++.++.+...+...     +.+.++|++|+||||+++.+++.+... |...+++.
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~-----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~   73 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQK-----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP   73 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcC-----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe
Confidence            3457899999998888877642     367799999999999999999987654 23344443

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

>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=96.81  E-value=0.0097  Score=54.76  Aligned_cols=53  Identities=21%  Similarity=0.174  Sum_probs=39.0

Q ss_pred             chhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           54 DSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        54 ~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..-...|-..|. +.- +..+++-|+|++|+|||||+.++...........+|+.
T Consensus        35 ~TG~~~LD~aLg~GG~-p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID   88 (322)
T PF00154_consen   35 STGSPALDYALGIGGL-PRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFID   88 (322)
T ss_dssp             --S-HHHHHHTSSSSE-ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEE
T ss_pred             ecCCcccchhhccCcc-ccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEec
Confidence            444555666665 333 67789999999999999999999998766667778876

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 ....

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.81  E-value=0.0046  Score=54.05  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+++.+++.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998774

>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=96.81  E-value=0.0033  Score=52.95  Aligned_cols=27  Identities=26%  Similarity=0.359  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....++|.|+.|+|||||++.++...
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          26 EPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            345689999999999999999998764

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

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.80  E-value=0.0069  Score=55.64  Aligned_cols=44  Identities=25%  Similarity=0.082  Sum_probs=33.0

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~   93 (398)
                      ...+-+|..+..--.+.|..   +....|.+.|.+|+|||-||....
T Consensus       223 vwGi~prn~eQ~~ALdlLld---~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         223 VWGIRPRNAEQRVALDLLLD---DDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             hhccCcccHHHHHHHHHhcC---CCCCeEEeeccCCccHhHHHHHHH
Confidence            34455666666666666655   678899999999999998887665

>PRK14528 adenylate kinase; Provisional

Probab=96.79  E-value=0.0059  Score=52.04  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++|.|++|+||||+++.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998775

>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=96.79  E-value=0.0064  Score=55.21  Aligned_cols=125  Identities=18%  Similarity=0.169  Sum_probs=67.9

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      +.+.-.....+.+.++|.... .....++|.|+.|+||||++..++..+...-..++-+.+..+.....         ..
T Consensus       104 e~l~~~~~~~~~~~~~l~~~v-~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~---------~~  173 (270)
T PF00437_consen  104 EDLGESGSIPEEIAEFLRSAV-RGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPG---------PN  173 (270)
T ss_dssp             CCCCHTHHCHHHHHHHHHHCH-HTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SC---------SS
T ss_pred             hhccCchhhHHHHHHHHhhcc-ccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecc---------cc
Confidence            344444555566666665432 34578999999999999999999988766623333333111110000         00


Q ss_pred             HHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEe
Q 015918          128 TLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITA  188 (398)
Q Consensus       128 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTs  188 (398)
                      .......  .......+.+...++..|=.|+++++.+.+....+...    ..|..+.+||
T Consensus       174 ~~~~~~~--~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~~a~----~tGh~~~~tT  228 (270)
T PF00437_consen  174 QIQIQTR--RDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAIQAA----NTGHLGSLTT  228 (270)
T ss_dssp             EEEEEEE--TTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHHHHH----HTT-EEEEEE
T ss_pred             eEEEEee--cCcccHHHHHHHHhcCCCCcccccccCCHhHHHHHHhh----ccCCceeeee
Confidence            0000000  11112556677778888889999999877766664333    2355552444

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 ....

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.79  E-value=0.0057  Score=53.82  Aligned_cols=48  Identities=21%  Similarity=0.266  Sum_probs=35.6

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-+.|.++- +...++.|.|++|+|||+++.+++.....+-..+.|++
T Consensus         4 ~LD~~l~gGi-~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         4 GLDEMLGGGF-PEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hhHHHhcCCC-CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3444554433 56789999999999999999999987545555566765

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.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.79  E-value=0.0049  Score=62.10  Aligned_cols=27  Identities=22%  Similarity=0.219  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .++.+|+|.+|+||||+++.++..+..
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~  193 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQ  193 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999887643

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.79  E-value=0.0015  Score=54.29  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|+||+|+|||||++.+..+.
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc
Confidence            34689999999999999999999876

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.78  E-value=0.01  Score=50.58  Aligned_cols=49  Identities=20%  Similarity=0.174  Sum_probs=38.5

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|-..|.++- +-...+.|-|+-|.|||.|++++++-.-.+-..+.+++
T Consensus        15 delDkrLGGGi-P~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvs   63 (235)
T COG2874          15 DELDKRLGGGI-PVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVS   63 (235)
T ss_pred             HHHHhhccCCC-ccCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEE
Confidence            34555665554 67789999999999999999999999766666666765

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.78  E-value=0.0022  Score=55.71  Aligned_cols=51  Identities=24%  Similarity=0.247  Sum_probs=36.3

Q ss_pred             ccccchhHHHHHHHhc----------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           50 LVGVDSRIEEILSLLG----------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        50 fvGR~~el~~l~~~L~----------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +=|-+-.-+++.+...          ....+.++-+.++||+|+|||-|++.++++....|
T Consensus       157 iggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  157 IGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             cccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            4455555666665542          12226778899999999999999999998755443

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.78  E-value=0.0023  Score=53.96  Aligned_cols=36  Identities=25%  Similarity=0.209  Sum_probs=28.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ...+++|.|++|+||||+++.++..+......+.++
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i   38 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL   38 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            456899999999999999999999876543334444

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.78  E-value=0.0019  Score=54.75  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=23.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +|+|.|++|+||||||..+...+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~~   27 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVNG   27 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            478999999999999999999876443

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

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.78  E-value=0.0054  Score=60.23  Aligned_cols=92  Identities=13%  Similarity=0.051  Sum_probs=54.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ...+++|+|+.|+||||++..+.+.+......++-+.+..+    ....    .+ .+..   ............+...+
T Consensus       241 ~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE----~~~~----~~-~q~~---v~~~~g~~f~~~lr~~L  308 (486)
T TIGR02533       241 PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVE----YQIE----GI-GQIQ---VNPKIGLTFAAGLRAIL  308 (486)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCee----eecC----CC-ceEE---EccccCccHHHHHHHHH
Confidence            44689999999999999999888876543223333321100    0000    00 0100   00011122556777888


Q ss_pred             CCceEEEEEeCCCChHhHHHHHcc
Q 015918          151 TRKKVLIVFDDVNHPRQIEFLIGN  174 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~~~~~~l~~~  174 (398)
                      +..|=+|++.++.+.+........
T Consensus       309 R~dPDvI~vGEiRd~eta~~a~~a  332 (486)
T TIGR02533       309 RQDPDIIMVGEIRDLETAQIAIQA  332 (486)
T ss_pred             hcCCCEEEEeCCCCHHHHHHHHHH
Confidence            888999999999888765544433

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.

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

Probab=96.77  E-value=0.002  Score=52.08  Aligned_cols=32  Identities=19%  Similarity=0.185  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY  104 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~  104 (398)
                      +++.|+|+.|+|||||++.+++.+.++.-.+.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~   32 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVA   32 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceE
Confidence            47899999999999999999999875543344

>PRK03839 putative kinase; Provisional

Probab=96.77  E-value=0.0012  Score=55.89  Aligned_cols=24  Identities=33%  Similarity=0.518  Sum_probs=21.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|.|++|+||||+++.+++.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998863

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=96.77  E-value=0.047  Score=53.41  Aligned_cols=48  Identities=17%  Similarity=0.191  Sum_probs=37.8

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..++|+...++.+...+.... .....+.|+|++|+||+++|+.+....
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a-~~~~~vli~Ge~GtGK~~lA~~ih~~s  186 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIA-PSDITVLLLGESGTGKEVLARALHQLS  186 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHh-CCCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            468999999999888776433 333557799999999999999987653

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.77  E-value=0.0025  Score=56.39  Aligned_cols=31  Identities=23%  Similarity=0.259  Sum_probs=27.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ++..+++|.|++|+|||||++.++..+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~   61 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQDG   61 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhcc
Confidence            5678999999999999999999998876554

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.77  E-value=0.012  Score=54.13  Aligned_cols=56  Identities=18%  Similarity=0.236  Sum_probs=39.7

Q ss_pred             cccCcccccchhHHHHHHHhcc---------CCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           45 ETENKLVGVDSRIEEILSLLGV---------GLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~---------~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ..-.++-|-+...+++.+..--         ...  ..++-|.++||+|+|||-||+.+++.....|
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~f  155 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANF  155 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCc
Confidence            3444566677777777765421         000  4567899999999999999999998866555

>PRK10867 signal recognition particle protein; Provisional

Probab=96.76  E-value=0.005  Score=59.24  Aligned_cols=38  Identities=18%  Similarity=0.301  Sum_probs=29.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ..+.++.++|++|+||||++..++..+..+ ...+..+.
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~  136 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVA  136 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            346899999999999999999999887666 33344443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.76  E-value=0.0023  Score=59.90  Aligned_cols=49  Identities=33%  Similarity=0.333  Sum_probs=40.9

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      ..++|+++.+..+...+..+     +.+.+.|++|+|||+||+.+++.+...|.
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            34999999998888877543     47889999999999999999999876653

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.76  E-value=0.002  Score=64.95  Aligned_cols=75  Identities=13%  Similarity=0.152  Sum_probs=53.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEeechhhhhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      ..-+.++|.+..++.|...+...     +.++++|++|+||||+++.+++.+... +....|+.+     +......++.
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~-----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n-----p~~~~~~~~~   97 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQR-----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN-----PEDPNNPKIR   97 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhC-----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC-----CCcchHHHHH
Confidence            44567999999999988877642     479999999999999999999886433 366677653     3344555555


Q ss_pred             HHHHHH
Q 015918          124 ELLSTL  129 (398)
Q Consensus       124 ~i~~~l  129 (398)
                      .+...+
T Consensus        98 ~v~~~~  103 (637)
T PRK13765         98 TVPAGK  103 (637)
T ss_pred             HHHHhc
Confidence            554433

>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=96.76  E-value=0.0025  Score=52.34  Aligned_cols=20  Identities=30%  Similarity=0.355  Sum_probs=18.4

Q ss_pred             EEcCCCccHHHHHHHHHHHh
Q 015918           77 IWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        77 I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |.|+||+||||+|..+++++
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>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=96.75  E-value=0.0047  Score=51.98  Aligned_cols=27  Identities=22%  Similarity=0.362  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....++|.|+.|+|||||++.++...
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345689999999999999999988653

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.75  E-value=0.01  Score=50.81  Aligned_cols=28  Identities=25%  Similarity=0.166  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ...++.|.|++|+|||+++.+++..+..
T Consensus        31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~   58 (193)
T PF13481_consen   31 RGELTLIAGPPGSGKTTLALQLAAALAT   58 (193)
T ss_dssp             TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3468999999999999999999988654

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.73  E-value=0.017  Score=59.76  Aligned_cols=105  Identities=15%  Similarity=0.230  Sum_probs=66.8

Q ss_pred             cCcccccchhHHHHHHHhccCC---CC--CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGL---TM--DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~---~~--~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ...++|.++.+..|.+.+..-.   ..  ....+.+.||.|+|||.||+.++..+.+..+..+-+.          +.+.
T Consensus       561 ~~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD----------mse~  630 (898)
T KOG1051|consen  561 HERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD----------MSEF  630 (898)
T ss_pred             HhhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec----------hhhh
Confidence            3558999999999999885211   12  4567889999999999999999999876665544443          1222


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCce-EEEEEeCCCC
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKK-VLIVFDDVNH  164 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~-~LlvlDd~~~  164 (398)
                      ..  ...+...... -........+...++.+| .+|+|||++.
T Consensus       631 ~e--vskligsp~g-yvG~e~gg~LteavrrrP~sVVLfdeIEk  671 (898)
T KOG1051|consen  631 QE--VSKLIGSPPG-YVGKEEGGQLTEAVKRRPYSVVLFEEIEK  671 (898)
T ss_pred             hh--hhhccCCCcc-cccchhHHHHHHHHhcCCceEEEEechhh
Confidence            21  1222111111 011114446667777776 4888999974

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.73  E-value=0.0035  Score=59.51  Aligned_cols=37  Identities=16%  Similarity=0.189  Sum_probs=29.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .....+.|.|++|+|||+|.+.+.+.++.....+...
T Consensus        20 ~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~   56 (364)
T PF05970_consen   20 EEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVT   56 (364)
T ss_pred             cCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEe
Confidence            3456889999999999999999999887754444443

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.72  E-value=0.0079  Score=61.69  Aligned_cols=53  Identities=21%  Similarity=0.141  Sum_probs=40.7

Q ss_pred             chhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           54 DSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        54 ~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..-+..|-..|. ++- +..+++.|+|++|+|||||+.+++......-..++|+.
T Consensus        42 sTGi~~LD~lLg~GGi-p~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId   95 (790)
T PRK09519         42 PTGSIALDVALGIGGL-PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (790)
T ss_pred             cCCcHHHHHhhcCCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            344556666676 444 67889999999999999999998877656666678876

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.015  Score=55.25  Aligned_cols=30  Identities=27%  Similarity=0.294  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +..+-+.+.||+|.|||-|++.++-.....
T Consensus       184 ~p~rglLLfGPpgtGKtmL~~aiAsE~~at  213 (428)
T KOG0740|consen  184 EPVRGLLLFGPPGTGKTMLAKAIATESGAT  213 (428)
T ss_pred             cccchhheecCCCCchHHHHHHHHhhhcce
Confidence            456778899999999999999998764333

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=96.70  E-value=0.0029  Score=52.06  Aligned_cols=37  Identities=30%  Similarity=0.454  Sum_probs=30.5

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -...+++|.+++.     + +++++.|++|+|||||+..+...
T Consensus        22 ~~~g~~~l~~~l~-----~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   22 TGEGIEELKELLK-----G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTTTHHHHHHHHT-----T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCcCHHHHHHHhc-----C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            3466788888884     3 78999999999999999998754

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.70  E-value=0.013  Score=46.60  Aligned_cols=34  Identities=15%  Similarity=-0.036  Sum_probs=26.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhc--cCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISR--RFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~--~f~~~~~~~  107 (398)
                      .++|+|++|+|||+.+..++.....  ....+++++
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            4789999999999999998887544  445666665

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK10436 hypothetical protein; Provisional

Probab=96.70  E-value=0.0038  Score=60.68  Aligned_cols=103  Identities=10%  Similarity=0.021  Sum_probs=58.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .....++|+|+.|+||||++..+...+.... ..++..    -++...   .+.. ..+..   ............+...
T Consensus       216 ~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~-~~i~Ti----EDPvE~---~l~g-i~Q~~---v~~~~g~~f~~~lr~~  283 (462)
T PRK10436        216 QPQGLILVTGPTGSGKTVTLYSALQTLNTAQ-INICSV----EDPVEI---PLAG-INQTQ---IHPKAGLTFQRVLRAL  283 (462)
T ss_pred             hcCCeEEEECCCCCChHHHHHHHHHhhCCCC-CEEEEe----cCCccc---cCCC-cceEe---eCCccCcCHHHHHHHH
Confidence            3457999999999999999988777764432 222221    111000   0000 00110   0001112256777888


Q ss_pred             hCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEe
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITA  188 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTs  188 (398)
                      ++..|=+|++.++.+.+.........    ..++.++||
T Consensus       284 LR~dPDvI~vGEIRD~eta~~al~AA----~TGHlVlsT  318 (462)
T PRK10436        284 LRQDPDVIMVGEIRDGETAEIAIKAA----QTGHLVLST  318 (462)
T ss_pred             hcCCCCEEEECCCCCHHHHHHHHHHH----HcCCcEEEe
Confidence            88899999999998877665443332    122356665

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.68  E-value=0.0045  Score=53.44  Aligned_cols=26  Identities=19%  Similarity=0.308  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....++|.|+.|+|||||++.++..
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          24 KKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            44578999999999999999998865

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.

>TIGR01351 adk adenylate kinases

Probab=96.68  E-value=0.0076  Score=52.47  Aligned_cols=22  Identities=32%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.++..+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998764

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.68  E-value=0.0046  Score=57.38  Aligned_cols=49  Identities=22%  Similarity=0.251  Sum_probs=34.7

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+.+.+.... ++..+|.|+|++|+|||||+..+...+...-..+..+.
T Consensus        43 ~~l~~~~~~~~-~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~   91 (332)
T PRK09435         43 QELLDALLPHT-GNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLA   91 (332)
T ss_pred             HHHHHHHhhcC-CCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            34444443322 56789999999999999999999988776533344443

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.67  E-value=0.0024  Score=54.89  Aligned_cols=29  Identities=28%  Similarity=0.404  Sum_probs=26.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++-+|+|.|.+|+||||+|+.++..+...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            45789999999999999999999998766

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.67  E-value=0.0015  Score=52.83  Aligned_cols=26  Identities=27%  Similarity=0.459  Sum_probs=22.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +|.|.|++|+||||+++.+++++.-.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~   27 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK   27 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc
Confidence            58899999999999999999886444

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.67  E-value=0.01  Score=50.90  Aligned_cols=26  Identities=19%  Similarity=0.305  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++..
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          31 KPGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34568999999999999999999853

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.67  E-value=0.0031  Score=54.37  Aligned_cols=38  Identities=24%  Similarity=0.336  Sum_probs=30.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+..+++|+|++|+|||||++.+...+.......+++.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld   59 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLD   59 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEc
Confidence            46679999999999999999999998755443445553

>PLN02674 adenylate kinase

Probab=96.67  E-value=0.013  Score=51.91  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....++|.|++|+||||+++.+++++
T Consensus        30 ~~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         30 PDKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHc
Confidence            34568899999999999999998764

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.65  E-value=0.017  Score=49.42  Aligned_cols=22  Identities=27%  Similarity=0.292  Sum_probs=20.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.+++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998774

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

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.65  E-value=0.017  Score=56.50  Aligned_cols=49  Identities=16%  Similarity=0.165  Sum_probs=33.3

Q ss_pred             cccchhHHHHHHHhccCC-C--CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           51 VGVDSRIEEILSLLGVGL-T--MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~-~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      -++...+..|.+.+.... +  ....+++|+|++|+||||++..++..+..+
T Consensus       326 ~~~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        326 RGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             hHHHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            344555555555442111 1  456899999999999999999999876544

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.65  E-value=0.0018  Score=55.17  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.++++|+||+|+|||||++.++...
T Consensus         2 ~~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          2 ASPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            356889999999999999999998764

>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=96.65  E-value=0.0036  Score=57.95  Aligned_cols=59  Identities=24%  Similarity=0.205  Sum_probs=41.4

Q ss_pred             cccCcccccchhHHHHH---HHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE
Q 015918           45 ETENKLVGVDSRIEEIL---SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY  104 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~---~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~  104 (398)
                      .....+||..+..+...   +++.... -..+.+++.||+|+|||+||..+++.+..+.++..
T Consensus        21 ~~~~GlVGQ~~AReAagiiv~mIk~~K-~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~   82 (398)
T PF06068_consen   21 YIADGLVGQEKAREAAGIIVDMIKEGK-IAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVS   82 (398)
T ss_dssp             SEETTEES-HHHHHHHHHHHHHHHTT---TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEE
T ss_pred             eccccccChHHHHHHHHHHHHHHhccc-ccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeE
Confidence            45678999998887744   3444433 34689999999999999999999999987766433

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.65  E-value=0.0068  Score=55.94  Aligned_cols=53  Identities=19%  Similarity=0.286  Sum_probs=44.6

Q ss_pred             cCcccccchhHHHHHHHhccCC---CCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           47 ENKLVGVDSRIEEILSLLGVGL---TMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~---~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...|+|-++.++++.+.+....   +.+.+++.+.||.|.|||||+..+.+.+.+.
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            4589999999999999886322   2678999999999999999999998887555

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

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=96.64  E-value=0.017  Score=56.12  Aligned_cols=72  Identities=19%  Similarity=0.201  Sum_probs=47.1

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh-ccCcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS-RRFEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      ...|-..-+..|-+.+.+ - .+..+++|.|.+|+|||+++..++.... .+...+.|++      ...+..++...++.
T Consensus       173 ~~~gi~tG~~~LD~~~~G-~-~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS------lEm~~~~l~~Rl~~  244 (421)
T TIGR03600       173 ELTGLSTGLPKLDRLTNG-L-VKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS------LEMSAEQLGERLLA  244 (421)
T ss_pred             CCcceeCCChhHHHHhcC-C-CCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE------CCCCHHHHHHHHHH
Confidence            355666666667666652 2 4567899999999999999999997754 3333455655      12344555555544


Q ss_pred             H
Q 015918          128 T  128 (398)
Q Consensus       128 ~  128 (398)
                      .
T Consensus       245 ~  245 (421)
T TIGR03600       245 S  245 (421)
T ss_pred             H
Confidence            3

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>TIGR00959 ffh signal recognition particle protein

Probab=96.64  E-value=0.0073  Score=58.09  Aligned_cols=27  Identities=22%  Similarity=0.336  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++.++.++|++|+||||++..++..+.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            467899999999999999999998865

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.64  E-value=0.0014  Score=52.76  Aligned_cols=26  Identities=19%  Similarity=0.378  Sum_probs=22.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++|.||+|+|||||++.+++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            36899999999999999999875444

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.64  E-value=0.0021  Score=56.95  Aligned_cols=31  Identities=19%  Similarity=0.309  Sum_probs=22.9

Q ss_pred             EEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           77 IWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        77 I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      |.||+|+||||+++.+.+.+......+..++
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vN   31 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVN   31 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEE
Confidence            6799999999999999998766654444444

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

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.63  E-value=0.0091  Score=53.35  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|+.|+|||||++.++...
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998753

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.61  E-value=0.0038  Score=52.12  Aligned_cols=30  Identities=23%  Similarity=0.270  Sum_probs=26.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...+++.|+|++|+|||||+..+...+..+
T Consensus         4 ~~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          4 TMIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CCceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            356789999999999999999999987664

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.60  E-value=0.0068  Score=59.81  Aligned_cols=49  Identities=22%  Similarity=0.109  Sum_probs=36.5

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh-hccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI-SRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~-~~~f~~~~~~~  107 (398)
                      ..|-+.|.+.- ++.++++|.|++|+||||||.+++..- .+.-...+|++
T Consensus         8 ~gLD~il~GGl-p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs   57 (484)
T TIGR02655         8 EGFDDISHGGL-PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVT   57 (484)
T ss_pred             hhHHHhcCCCC-CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            34445555544 678899999999999999999998763 33245677776

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.60  E-value=0.0075  Score=56.11  Aligned_cols=50  Identities=22%  Similarity=0.266  Sum_probs=36.5

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~  107 (398)
                      ...+-+.|.++- +...++.|+|++|+|||+|+.+++......      -..++|+.
T Consensus        88 ~~~lD~~l~GGi-~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~  143 (317)
T PRK04301         88 SKELDELLGGGI-ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID  143 (317)
T ss_pred             CHHHHHHhcCCc-cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence            345555665544 667899999999999999999999774322      13577776

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

Probab=96.59  E-value=0.002  Score=54.54  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+++|.|++|+|||||++.++..+.
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.

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

Probab=96.59  E-value=0.0017  Score=53.22  Aligned_cols=23  Identities=22%  Similarity=0.543  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +++|+|++|+||||+|+.+.+..
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            37899999999999999998773

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.59  E-value=0.0021  Score=55.77  Aligned_cols=26  Identities=27%  Similarity=0.324  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +..+.++|+||+|+|||||+..+.+.
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            56789999999999999999998754

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=96.59  E-value=0.5  Score=42.14  Aligned_cols=56  Identities=11%  Similarity=0.103  Sum_probs=35.4

Q ss_pred             ceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHhc-CCCeeEEcCCC
Q 015918          153 KKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALINC-GVNKIYQIKEL  208 (398)
Q Consensus       153 ~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~~-~~~~~~~l~~L  208 (398)
                      ..=++|||+++.  ......++..+-+-+++..+|++|.++ .+.+.. +.+..+.+++.
T Consensus        88 ~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~  147 (261)
T PRK05818         88 GKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSK  147 (261)
T ss_pred             CCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCCh
Confidence            345789999974  456777777776656677666666544 344333 34456666665

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.58  E-value=0.0028  Score=55.54  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +++|.|++|+||||||+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            478999999999999999998875

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

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=96.58  E-value=0.22  Score=45.43  Aligned_cols=67  Identities=16%  Similarity=0.253  Sum_probs=43.4

Q ss_pred             CceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHhc-CCCeeEEcCCCChhhhHHHHHH
Q 015918          152 RKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALINC-GVNKIYQIKELVHVDALKLLNQ  219 (398)
Q Consensus       152 ~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~~-~~~~~~~l~~L~~~e~~~Ll~~  219 (398)
                      +++-++|||+++.  ......++..+-+-+.+..+|++|.+. .+.+.. +.+..+.+.+ +.++..+.+..
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            3455999999974  445677777776655666666666544 344433 4567788877 67777777753

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=96.58  E-value=0.015  Score=60.21  Aligned_cols=128  Identities=16%  Similarity=0.184  Sum_probs=67.3

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCC
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGN  134 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~  134 (398)
                      ....+|.+.+.     ..++++|.|+.|+||||-.-+++....-.....+-+..-+.+    ...++...+...++....
T Consensus        53 ~~~~~i~~ai~-----~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRl----AArsvA~RvAeel~~~~G  123 (845)
T COG1643          53 AVRDEILKAIE-----QNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRL----AARSVAERVAEELGEKLG  123 (845)
T ss_pred             HHHHHHHHHHH-----hCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHH----HHHHHHHHHHHHhCCCcC
Confidence            44555666663     456999999999999999999997743333334444422222    233444444455543210


Q ss_pred             --------CC-CC--Cc-c---chHHHHHhhC-----CceEEEEEeCCCChHh-HHHHHcc----CCCCCCCcEEEEEeC
Q 015918          135 --------MN-KF--PN-I---GLNFQSKRLT-----RKKVLIVFDDVNHPRQ-IEFLIGN----LDWFASGSRILITAR  189 (398)
Q Consensus       135 --------~~-~~--~~-~---~~~~l~~~l~-----~~~~LlvlDd~~~~~~-~~~l~~~----l~~~~~~~~iliTsR  189 (398)
                              .+ ..  .. .   --..+.+.+.     .+--+||||++++-.. .+.++..    +....+..+|||+|=
T Consensus       124 ~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSA  203 (845)
T COG1643         124 ETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSA  203 (845)
T ss_pred             ceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEEec
Confidence                    00 00  00 0   1122222222     2334899999985432 2222222    222234689999885


Q ss_pred             Ch
Q 015918          190 DK  191 (398)
Q Consensus       190 ~~  191 (398)
                      .-
T Consensus       204 Tl  205 (845)
T COG1643         204 TL  205 (845)
T ss_pred             cc
Confidence            43

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=96.58  E-value=0.012  Score=59.19  Aligned_cols=27  Identities=22%  Similarity=0.197  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .++++|+|.+|+||||++..++..+..
T Consensus       160 ~~~~vitGgpGTGKTt~v~~ll~~l~~  186 (586)
T TIGR01447       160 SNFSLITGGPGTGKTTTVARLLLALVK  186 (586)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999877644

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.57  E-value=0.0091  Score=55.39  Aligned_cols=49  Identities=22%  Similarity=0.279  Sum_probs=35.7

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~  107 (398)
                      ..+...|.++- +...++.|+|++|+|||+|+.+++.....      .-..++|+.
T Consensus        82 ~~lD~~l~GGi-~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~  136 (310)
T TIGR02236        82 KELDELLGGGI-ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID  136 (310)
T ss_pred             HHHHHHhcCCC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEE
Confidence            44555565444 56788999999999999999999977432      112677876

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.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=96.57  E-value=0.1  Score=50.49  Aligned_cols=50  Identities=22%  Similarity=0.289  Sum_probs=42.3

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....++|+...++++.+.+..-. +....|.|+|++|+||-.+|+.+.+.
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA-~s~a~VLI~GESGtGKElvAr~IH~~  187 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVA-PSDASVLITGESGTGKELVARAIHQA  187 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHh-CCCCCEEEECCCCCcHHHHHHHHHhh
Confidence            457789999999999999887554 45567889999999999999998766

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

Probab=96.57  E-value=0.002  Score=54.35  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=20.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .|+|.|++|+||||+|+.++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999988

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.0074  Score=53.67  Aligned_cols=51  Identities=25%  Similarity=0.303  Sum_probs=38.8

Q ss_pred             cccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           49 KLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++=|-+..+++|.+...-+          ....++-|.++|++|.|||-||+.++++....
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT  246 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT  246 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh
Confidence            4567888889988876422          12456788899999999999999998774333

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

Probab=96.55  E-value=0.0036  Score=59.28  Aligned_cols=53  Identities=25%  Similarity=0.299  Sum_probs=40.4

Q ss_pred             CcccccchhHHHHHHHhccC---------C--CCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           48 NKLVGVDSRIEEILSLLGVG---------L--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~---------~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ..++|.+...+.+..++...         .  .-.++.++++||+|+|||+||+.+++.+...|
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~f   78 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChh
Confidence            45899999999988877431         0  01246789999999999999999999865443

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.54  E-value=0.0032  Score=54.27  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=21.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +++|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK00625 shikimate kinase; Provisional

Probab=96.54  E-value=0.0022  Score=53.80  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|+|++|+||||+++.+++.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988864

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

Probab=96.53  E-value=0.0019  Score=53.02  Aligned_cols=20  Identities=35%  Similarity=0.486  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~   93 (398)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999999987

>PRK14527 adenylate kinase; Provisional

Probab=96.53  E-value=0.0025  Score=54.63  Aligned_cols=27  Identities=19%  Similarity=0.186  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|++|+||||+|+.+++.+
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999998775

>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=96.53  E-value=0.0042  Score=51.33  Aligned_cols=118  Identities=15%  Similarity=0.120  Sum_probs=60.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ...+++|.|+.|+|||||++.++..+.. ....+++.... .. ......    ....+..... -+..+...-.+...+
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~~-~~G~i~~~~~~-~~-~~~~~~----~~~~i~~~~q-lS~G~~~r~~l~~~l   95 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLKP-TSGEILIDGKD-IA-KLPLEE----LRRRIGYVPQ-LSGGQRQRVALARAL   95 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC-CccEEEECCEE-cc-cCCHHH----HHhceEEEee-CCHHHHHHHHHHHHH
Confidence            4468999999999999999999876532 33344443110 00 000011    1111110000 022222333445555


Q ss_pred             CCceEEEEEeCCC---ChHhHHHHHccCCCC-CCCcEEEEEeCChhHHHh
Q 015918          151 TRKKVLIVFDDVN---HPRQIEFLIGNLDWF-ASGSRILITARDKQALIN  196 (398)
Q Consensus       151 ~~~~~LlvlDd~~---~~~~~~~l~~~l~~~-~~~~~iliTsR~~~~~~~  196 (398)
                      ...+-++++|+..   +......+...+... ..+..++++|-+......
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            6678899999984   333333333333211 224567777776655444

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.52  E-value=0.016  Score=50.17  Aligned_cols=28  Identities=14%  Similarity=0.146  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|+.|+|||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          31 KPGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            4556899999999999999999987644

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.52  E-value=0.0055  Score=56.71  Aligned_cols=92  Identities=14%  Similarity=0.164  Sum_probs=51.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCcc-chHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNI-GLNFQSKR  149 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~-~~~~l~~~  149 (398)
                      ....++|.|+.|+|||||++.++..+.... .++.+.+..+..... .     ... .+............ ..+.+...
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~-~-----~~~-~l~~~~~~~~~~~~~~~~~l~~~  214 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPH-P-----NYV-HLFYSKGGQGLAKVTPKDLLQSC  214 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCC-C-----CEE-EEEecCCCCCcCccCHHHHHHHH
Confidence            446899999999999999999987765433 233333221111100 0     000 00000000011111 45566667


Q ss_pred             hCCceEEEEEeCCCChHhHHH
Q 015918          150 LTRKKVLIVFDDVNHPRQIEF  170 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~  170 (398)
                      ++..+-.|++|++...+.+..
T Consensus       215 Lr~~pd~ii~gE~r~~e~~~~  235 (308)
T TIGR02788       215 LRMRPDRIILGELRGDEAFDF  235 (308)
T ss_pred             hcCCCCeEEEeccCCHHHHHH
Confidence            788888999999987665543

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.52  E-value=0.039  Score=46.11  Aligned_cols=25  Identities=24%  Similarity=0.173  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.++.+|+|..|+|||||+..++-.
T Consensus        36 ~apIT~i~GENGsGKSTLLEaiA~~   60 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAIAAG   60 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHHHhh
Confidence            5689999999999999999988864

>PRK15453 phosphoribulokinase; Provisional

Probab=96.52  E-value=0.0043  Score=55.66  Aligned_cols=38  Identities=18%  Similarity=0.213  Sum_probs=29.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+..+|+|.|.+|+||||+++.+.+.+........+++
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~   40 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVE   40 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEe
Confidence            45689999999999999999999987754433344443

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.51  E-value=0.0094  Score=60.59  Aligned_cols=27  Identities=22%  Similarity=0.406  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++...++|+|++|+|||||++-++.-+
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455789999999999999999998765

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.51  E-value=0.0063  Score=55.65  Aligned_cols=56  Identities=27%  Similarity=0.318  Sum_probs=44.5

Q ss_pred             cccCcccccchhHHH---HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           45 ETENKLVGVDSRIEE---ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        45 ~~~~~fvGR~~el~~---l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      .....|||..+..+.   +.+++.+.. -..+.|++.||+|+|||+||..+++.+...-+
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk-~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGK-MAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCc-ccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            567789999887776   444555544 56688999999999999999999999877744

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.51  E-value=0.0089  Score=59.92  Aligned_cols=26  Identities=19%  Similarity=0.233  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++...++|+|++|+|||||++.++.-
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45678999999999999999999865

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.51  E-value=0.0015  Score=55.61  Aligned_cols=22  Identities=18%  Similarity=-0.100  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +++|+|+.|.||||+++.++-.
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~   22 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLI   22 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHH
Confidence            4679999999999999999843

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

Probab=96.50  E-value=0.0053  Score=54.48  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +...+++|.||.|+|||||.+.++.-
T Consensus        26 ~~G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          26 PKGEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            45679999999999999999999874

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.50  E-value=0.024  Score=54.38  Aligned_cols=37  Identities=16%  Similarity=0.120  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.++.++|++|+||||++..++..+..+...+..++
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~  135 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVC  135 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEc
Confidence            4689999999999999999999988766544444443

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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=96.49  E-value=0.11  Score=51.11  Aligned_cols=49  Identities=22%  Similarity=0.324  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..++|....+.++.+.+.... .....+.|.|.+|+||+++|+.+.....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a-~~~~~vli~Ge~GtGK~~~A~~ih~~~~  182 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLS-RSDITVLINGESGTGKELVARALHRHSP  182 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHh-CcCCeEEEECCCCCCHHHHHHHHHHhCC
Confidence            458998888888887775433 3445688999999999999988876533

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.49  E-value=0.0053  Score=61.64  Aligned_cols=102  Identities=13%  Similarity=0.026  Sum_probs=58.0

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCC
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMN  136 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~  136 (398)
                      ++.+.+.+.    .....++|+|+.|+||||+...+.+.+... ...++..    -++.   +..+..+ .+...  . .
T Consensus       305 ~~~l~~~~~----~~~Glilv~G~tGSGKTTtl~a~l~~~~~~-~~~i~ti----Edpv---E~~~~~~-~q~~v--~-~  368 (564)
T TIGR02538       305 KALFLEAIH----KPQGMVLVTGPTGSGKTVSLYTALNILNTE-EVNISTA----EDPV---EINLPGI-NQVNV--N-P  368 (564)
T ss_pred             HHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHhhCCC-CceEEEe----cCCc---eecCCCc-eEEEe--c-c
Confidence            444544443    345789999999999999998888776433 2222221    0010   0000000 11100  0 0


Q ss_pred             CCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHcc
Q 015918          137 KFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGN  174 (398)
Q Consensus       137 ~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~  174 (398)
                      .........+...++..|=+|++.++.+.+........
T Consensus       369 ~~g~~~~~~l~~~LR~dPDvI~vGEiRd~eta~~a~~a  406 (564)
T TIGR02538       369 KIGLTFAAALRSFLRQDPDIIMVGEIRDLETAEIAIKA  406 (564)
T ss_pred             ccCCCHHHHHHHHhccCCCEEEeCCCCCHHHHHHHHHH
Confidence            11122566778888889999999999888766544333

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.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.49  E-value=0.023  Score=50.98  Aligned_cols=45  Identities=18%  Similarity=0.157  Sum_probs=33.1

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++.+...+......++-++.++|.+|+||+..++.+++.+...
T Consensus        93 ~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~  137 (344)
T KOG2170|consen   93 LVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRG  137 (344)
T ss_pred             HHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhc
Confidence            344445555555554677888999999999999999999885444

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.48  E-value=0.0091  Score=52.76  Aligned_cols=26  Identities=19%  Similarity=0.254  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....+.|.||.|.|||||.+.++--
T Consensus        28 ~~G~~~~iiGPNGaGKSTLlK~iLGl   53 (254)
T COG1121          28 EKGEITALIGPNGAGKSTLLKAILGL   53 (254)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34478999999999999999999974

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.48  E-value=0.027  Score=58.57  Aligned_cols=34  Identities=18%  Similarity=-0.050  Sum_probs=26.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ++++|+|++|+||||+++.+...+......+.++
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~  402 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGA  402 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            5889999999999999999988776654334443

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.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.47  E-value=0.0024  Score=51.93  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=21.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|.|++|+||||+|+.+++.+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999875

>PRK14529 adenylate kinase; Provisional

Probab=96.47  E-value=0.012  Score=51.47  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      |+|.|++|+||||+++.+++.+.
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~   25 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYD   25 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            78899999999999999998864

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.46  E-value=0.0028  Score=54.98  Aligned_cols=27  Identities=19%  Similarity=0.306  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+++|+|++|+|||||++.++..+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            457899999999999999999998753

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=96.46  E-value=0.0044  Score=57.15  Aligned_cols=35  Identities=34%  Similarity=0.409  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++++.|.||+||||+|..++-...++...+..++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS   36 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVS   36 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEee
Confidence            68999999999999999999988777665566655

...

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=96.45  E-value=0.0037  Score=52.36  Aligned_cols=35  Identities=20%  Similarity=0.357  Sum_probs=31.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+.|-|++|+|||+|..+.++.++++|...+-..
T Consensus        14 ~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~   48 (202)
T COG0378          14 LRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITG   48 (202)
T ss_pred             EEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEec
Confidence            68999999999999999999999999988666654

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.45  E-value=0.01  Score=60.81  Aligned_cols=26  Identities=23%  Similarity=0.302  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +....++|+|.+|+|||||++-+..-
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            44568999999999999999998864

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=96.45  E-value=0.079  Score=43.68  Aligned_cols=127  Identities=16%  Similarity=0.230  Sum_probs=70.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH-------------------------hhccCcceEEEe-----echh---------
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK-------------------------ISRRFEGSYFAH-----NVRE---------  111 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~-------------------------~~~~f~~~~~~~-----~~~~---------  111 (398)
                      ....+.|+|++|+|||||...++--                         ++.+.-..+|-+     .+..         
T Consensus        35 ~Ge~vaiVG~SGSGKSTLl~vlAGLd~~ssGeV~l~G~~L~~ldEd~rA~~R~~~vGfVFQSF~Lip~ltAlENV~lPle  114 (228)
T COG4181          35 RGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHKLDEDARAALRARHVGFVFQSFHLIPNLTALENVALPLE  114 (228)
T ss_pred             CCceEEEEcCCCCcHHhHHHHHhcCCCCCCceEEEcCcchhhcCHHHHHHhhccceeEEEEeeeccccchhhhhccchhh
Confidence            3456889999999999999877641                         222222233322     0110         


Q ss_pred             hhh--cCCHHHHHHHHHHHHhcCCCCCCC------CccchHHHHHhhCCceEEEEEeCCC-C-----hHhHHHHHccCCC
Q 015918          112 AEE--TGKLADLRKELLSTLLNDGNMNKF------PNIGLNFQSKRLTRKKVLIVFDDVN-H-----PRQIEFLIGNLDW  177 (398)
Q Consensus       112 ~~~--~~~~~~~~~~i~~~l~~~~~~~~~------~~~~~~~l~~~l~~~~~LlvlDd~~-~-----~~~~~~l~~~l~~  177 (398)
                      +..  ..+..+....++...+........      .+++.-.+.+.+...|-+++-|+-- +     -..+..++..+..
T Consensus       115 L~ge~~~~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~lnr  194 (228)
T COG4181         115 LRGESSADSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFALNR  194 (228)
T ss_pred             hcCCccccHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHHhh
Confidence            111  223344455555555443322222      2225566677788899999999862 1     2234444444332


Q ss_pred             CCCCcEEEEEeCChhHHHhcC
Q 015918          178 FASGSRILITARDKQALINCG  198 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~~~~~  198 (398)
                       ..+..+++.|-++..+..+.
T Consensus       195 -e~G~TlVlVTHD~~LA~Rc~  214 (228)
T COG4181         195 -ERGTTLVLVTHDPQLAARCD  214 (228)
T ss_pred             -hcCceEEEEeCCHHHHHhhh
Confidence             45667777777776666554

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.45  E-value=0.0081  Score=51.58  Aligned_cols=27  Identities=22%  Similarity=0.270  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....++|.|+.|+|||||++.++.-.
T Consensus        33 ~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          33 KPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            445689999999999999999998654

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.45  E-value=0.0063  Score=55.06  Aligned_cols=36  Identities=14%  Similarity=0.171  Sum_probs=30.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      .+..++.|.|++|+|||||+..+++.+......++.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI  137 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI  137 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence            567899999999999999999999998766544443

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.44  E-value=0.0055  Score=50.45  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      .+..++.++|.+|+||||+|..+.+.+....-....
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~   56 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYL   56 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEE
Confidence            456799999999999999999999998777544433

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

Probab=96.43  E-value=0.0025  Score=54.15  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=21.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999885

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.43  E-value=0.0032  Score=47.89  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~   93 (398)
                      ....++|.|++|+|||||++.+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            44689999999999999999986

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>smart00072 GuKc Guanylate kinase homologues

Probab=96.43  E-value=0.0029  Score=53.89  Aligned_cols=29  Identities=24%  Similarity=0.423  Sum_probs=24.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .+.++|.||+|+||+|++..++......|
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~~~~~   30 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEIPDAF   30 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcCCcce
Confidence            36899999999999999999988764444

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.42  E-value=0.0022  Score=53.41  Aligned_cols=22  Identities=32%  Similarity=0.643  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++|+|++|+||||+++.+.+.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999876

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.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.42  E-value=0.012  Score=55.54  Aligned_cols=35  Identities=23%  Similarity=0.194  Sum_probs=30.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh--hccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI--SRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~--~~~f~~~~~~~  107 (398)
                      ++++|.|.||+|||.||..+++.+  ........+++
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~   38 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLC   38 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEE
Confidence            589999999999999999999998  66666677766

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.41  E-value=0.0061  Score=47.75  Aligned_cols=27  Identities=19%  Similarity=0.129  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+|++.|+=|+|||||++.+++.+
T Consensus        13 ~~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   13 KPGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             SS-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            455799999999999999999999985

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.41  E-value=0.0037  Score=42.27  Aligned_cols=25  Identities=24%  Similarity=0.202  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.+|+|+.|+|||||...+..-+-
T Consensus        24 ~~tli~G~nGsGKSTllDAi~~~L~   48 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQTVLY   48 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHc
Confidence            3789999999999999998876543

>PRK13808 adenylate kinase; Provisional

Probab=96.41  E-value=0.011  Score=54.62  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|+||+||||++..++..+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998764

>TIGR01069 mutS2 MutS2 family protein

Probab=96.41  E-value=0.0051  Score=63.81  Aligned_cols=25  Identities=24%  Similarity=0.090  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.+.++|+||.|.|||||.+.++-.
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHH
Confidence            3478999999999999999999865

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.

>PRK14530 adenylate kinase; Provisional

Probab=96.40  E-value=0.003  Score=55.23  Aligned_cols=24  Identities=17%  Similarity=0.303  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.|+|.|++|+||||+++.+++.+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999998876

>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]

Probab=96.40  E-value=0.013  Score=51.96  Aligned_cols=86  Identities=24%  Similarity=0.276  Sum_probs=52.6

Q ss_pred             HHHHhccCCccccCCCcchHHHHHHHHHHHHhccccccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHH
Q 015918            8 LTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTA   87 (398)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTt   87 (398)
                      .+++..+.|.+=+-..   .-++.+.--+.+.+.-.      ..-++.-...+...|.......+-+|+|.|++|+||||
T Consensus        27 ~~e~~~~~~ln~~~~l---~eV~~iylpL~~l~~~~------~~~~~~~~~~~~~~l~~~~~~~pfIIgiaGsvavGKST   97 (283)
T COG1072          27 EEELKRLRGLNEPISL---DEVEDIYLPLSRLLQLY------VEARERLFAELLRFLGTNNQQRPFIIGIAGSVAVGKST   97 (283)
T ss_pred             HHHHHHhccCCCCCCH---HHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHhccCCCCCCEEEEeccCccccHHH
Confidence            3444445544333222   33444444444444333      23344445556666654443677889999999999999


Q ss_pred             HHHHHHHHhhccCcc
Q 015918           88 IAGAFFSKISRRFEG  102 (398)
Q Consensus        88 La~~~~~~~~~~f~~  102 (398)
                      +|+.+..-+...++.
T Consensus        98 ~ar~L~~ll~~~~~~  112 (283)
T COG1072          98 TARILQALLSRWPES  112 (283)
T ss_pred             HHHHHHHHHhhCCCC
Confidence            999999988777655

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=96.40  E-value=0.0043  Score=53.54  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=25.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+.++++.|++|+||||++..+...+.  ....+.+.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~   48 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVID   48 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE-
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEe
Confidence            5778899999999999999999988764  33344443

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.40  E-value=0.0028  Score=50.53  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+-|+|+|.||+|||||+..++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3568899999999999999998663

>PRK13947 shikimate kinase; Provisional

Probab=96.39  E-value=0.0029  Score=53.03  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .|+|.|++|+||||+++.+++.+.-
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999988643

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.39  E-value=0.011  Score=54.30  Aligned_cols=89  Identities=16%  Similarity=0.175  Sum_probs=51.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC--cceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF--EGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .+.++|+|+.|+||||+++.++..+....  ..++.+.+..+..... .        ...... .. .......+.+...
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~-~--------~~v~~~-~~-~~~~~~~~~l~~a  200 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAA-P--------NVVQLR-TS-DDAISMTRLLKAT  200 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCC-C--------CEEEEE-ec-CCCCCHHHHHHHH
Confidence            35788999999999999999998876532  2233322111111000 0        000000 00 0011245677777


Q ss_pred             hCCceEEEEEeCCCChHhHHHH
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFL  171 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l  171 (398)
                      ++..|=.|++.++...+.+..+
T Consensus       201 LR~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       201 LRLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             hcCCCCEEEEeccCCHHHHHHH
Confidence            8888889999999877665543

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.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=96.39  E-value=0.0026  Score=54.99  Aligned_cols=24  Identities=21%  Similarity=-0.057  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..+++|+|+.|+|||||++.++..
T Consensus        29 ~~~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          29 GRLLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             CeEEEEECCCCCccHHHHHHHHHH
Confidence            368999999999999999999843

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

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=96.39  E-value=0.14  Score=50.31  Aligned_cols=48  Identities=19%  Similarity=0.164  Sum_probs=36.8

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..++|....+..+.+.+.... .....+.|.|++|+||+++|+.+....
T Consensus       143 ~~ii~~S~~~~~~~~~~~~~a-~~~~~vli~Ge~GtGK~~lA~~ih~~s  190 (457)
T PRK11361        143 GHILTNSPAMMDICKDTAKIA-LSQASVLISGESGTGKELIARAIHYNS  190 (457)
T ss_pred             cceecccHHHhHHHHHHHHHc-CCCcEEEEEcCCCccHHHHHHHHHHhC
Confidence            358888888888777665443 344578899999999999999987653

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.38  E-value=0.0098  Score=51.02  Aligned_cols=27  Identities=30%  Similarity=0.315  Sum_probs=24.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..|+|.|+.|+||||+++.+.+.+...
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~~   30 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQEN   30 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999887654

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.

>PRK13764 ATPase; Provisional

Probab=96.38  E-value=0.011  Score=59.11  Aligned_cols=86  Identities=13%  Similarity=0.105  Sum_probs=48.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT  151 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  151 (398)
                      ...++|+|++|+||||+++.++..+..+...+..+.+..+......        ..+..      .............+.
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~--------i~q~~------~~~~~~~~~~~~lLR  322 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPE--------ITQYS------KLEGSMEETADILLL  322 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCc--------ceEEe------eccccHHHHHHHHHh
Confidence            3568999999999999999999887654322223322111111000        00000      000001112222356


Q ss_pred             CceEEEEEeCCCChHhHHHH
Q 015918          152 RKKVLIVFDDVNHPRQIEFL  171 (398)
Q Consensus       152 ~~~~LlvlDd~~~~~~~~~l  171 (398)
                      .+|=.|++|++.+.+.++.+
T Consensus       323 ~rPD~IivGEiRd~Et~~~~  342 (602)
T PRK13764        323 VRPDYTIYDEMRKTEDFKIF  342 (602)
T ss_pred             hCCCEEEECCCCCHHHHHHH
Confidence            67889999999888877654

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.38  E-value=0.0051  Score=53.44  Aligned_cols=29  Identities=28%  Similarity=0.456  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +.+.++|.|++|+|||+|+.++++.....
T Consensus        14 ~Gqr~~I~g~~g~GKt~Ll~~i~~~~~~d   42 (215)
T PF00006_consen   14 RGQRIGIFGGAGVGKTVLLQEIANNQDAD   42 (215)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHCTTT
T ss_pred             cCCEEEEEcCcccccchhhHHHHhccccc
Confidence            44678899999999999999999987543

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 ....

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.38  E-value=0.034  Score=53.02  Aligned_cols=25  Identities=24%  Similarity=0.169  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..++++.|++|+||||++.+++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999999764

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.37  E-value=0.0091  Score=55.06  Aligned_cols=37  Identities=24%  Similarity=0.285  Sum_probs=29.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ....+++|.|++|+|||||+..+...+......+..+
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i   68 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVI   68 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            5678999999999999999999998866553333333

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.37  E-value=0.0027  Score=53.77  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++++|.||+|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999998754

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.028  Score=49.01  Aligned_cols=45  Identities=27%  Similarity=0.348  Sum_probs=33.2

Q ss_pred             ccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           52 GVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        52 GR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |-+..+++|.+.+.-          -....++-+.++||+|.|||-||+.++++.
T Consensus       151 gLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht  205 (404)
T KOG0728|consen  151 GLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT  205 (404)
T ss_pred             cHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc
Confidence            446666776665431          112567889999999999999999998763

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.077  Score=49.67  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+-|..+||||.|||-+|++++.+-
T Consensus       382 apfRNilfyGPPGTGKTm~ArelAr~S  408 (630)
T KOG0742|consen  382 APFRNILFYGPPGTGKTMFARELARHS  408 (630)
T ss_pred             chhhheeeeCCCCCCchHHHHHHHhhc
Confidence            567889999999999999999999873

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.35  E-value=0.0039  Score=54.56  Aligned_cols=24  Identities=17%  Similarity=-0.093  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ..++++|+|+.|.||||+.+.++-
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            456889999999999999999987

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

>PRK13949 shikimate kinase; Provisional

Probab=96.34  E-value=0.0035  Score=52.50  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|.|++|+||||+++.+++.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998864

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.34  E-value=0.012  Score=58.51  Aligned_cols=53  Identities=26%  Similarity=0.230  Sum_probs=40.3

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ..-+..|-+.|.++- +..++++|.|++|+|||+|+.+++.....+ ...+.|++
T Consensus        14 ~TGI~~LD~~l~GG~-p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis   67 (509)
T PRK09302         14 PTGIEGFDDITHGGL-PKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVT   67 (509)
T ss_pred             cCCchhHHHhhcCCC-CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEE
Confidence            444556666676544 678899999999999999999999875444 55677776

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.34  E-value=0.0035  Score=48.92  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|++|+|||||++.++..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999999976

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.34  E-value=0.0062  Score=56.40  Aligned_cols=37  Identities=24%  Similarity=0.319  Sum_probs=29.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..++++.||+|+||||++..++..+...-..+..+.
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~  149 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA  149 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence            5689999999999999999999998776544444443

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.34  E-value=0.0095  Score=51.12  Aligned_cols=27  Identities=26%  Similarity=0.343  Sum_probs=23.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +|+|.|+.|+||||+++.+++.+....
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g   28 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEARG   28 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            689999999999999999999986543

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

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.34  E-value=0.0041  Score=53.40  Aligned_cols=25  Identities=40%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+++|.|.+|+||||+|+.++..+
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998874

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=96.33  E-value=0.04  Score=58.16  Aligned_cols=284  Identities=15%  Similarity=0.107  Sum_probs=138.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccC----cceEEEeech-hhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRF----EGSYFAHNVR-EAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNF  145 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f----~~~~~~~~~~-~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  145 (398)
                      ...-+.|.|.+|+||||++..++-...++.    ...+++.... ...........+.+.+........   ........
T Consensus       221 ~~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~---~~~~~~~~  297 (824)
T COG5635         221 KYAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQG---IAKQLIEA  297 (824)
T ss_pred             hhhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccC---CcchhhHH
Confidence            345788999999999999999987644432    2223332110 000011111022223333322211   11112222


Q ss_pred             HHHhhCCceEEEEEeCCCChH------hHHHHHccCCCCCCCcEEEEEeCChhHHHhcCCCeeEEcCCCChhhhHHHHHH
Q 015918          146 QSKRLTRKKVLIVFDDVNHPR------QIEFLIGNLDWFASGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQ  219 (398)
Q Consensus       146 l~~~l~~~~~LlvlDd~~~~~------~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~~~~~~~~l~~L~~~e~~~Ll~~  219 (398)
                      ....+...++++++|.++...      .... ...+...-+...+|+|+|.............+++..+.++....++..
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~-i~~f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~~  376 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIRE-INKFLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFILY  376 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHH-HHHHhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHHH
Confidence            246778899999999997532      1222 122222235778999999876555555566677777777766655442


Q ss_pred             hh-----cCC-CCCC-c---chHH---HHHHHHHHcCCChHHHHHHHHHhcc------CCHHHHHHHHHHhccCChhhHH
Q 015918          220 CA-----FGR-DHPD-A---SYIE---LTHEAIKYAQGVPIALKILGRFLFR------KRKEVWENAISKLEMVPQMEIQ  280 (398)
Q Consensus       220 ~~-----~~~-~~~~-~---~~~~---~~~~i~~~~~g~Pl~i~~l~~~l~~------~~~~~~~~~~~~l~~~~~~~v~  280 (398)
                      ..     ... .... .   ....   -.....+....+|+.|.+.|..-..      ...+-+....+.+-...+..=.
T Consensus       377 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~~~d~~~~  456 (824)
T COG5635         377 QWLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLGREDETRG  456 (824)
T ss_pred             HHHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHhccchhhh
Confidence            11     010 0000 0   0000   0122233347889999888754431      2233444443333221111111


Q ss_pred             HHHHHhHhcCch-HHHH-HHHHhhcCcCCc---------ChHHHHHHHHhc-Ccc-----ccccHHHHh---hccCeeec
Q 015918          281 EVLKISYDGLDD-KEKN-IFLDIACFLVGE---------DRDIVTKYLNAC-EFF-----ATSGIEVLV---DKSLITIS  340 (398)
Q Consensus       281 ~~l~~~~~~L~~-~~~~-~l~~la~~~~~~---------~~~~l~~~~~~~-~~~-----~~~~l~~L~---~~~Ll~~~  340 (398)
                      ......+..+.. .... ++..++.+-...         ..+.+....... ...     ....+..+.   +.|++...
T Consensus       457 ~~~~~~~~~~~~~~~~~~l~~~la~~~~~~~~~~~~~~~~~~~i~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~glL~~~  536 (824)
T COG5635         457 IKWSKTYAKLTTDQQDKWLLQLLAALLFEKLDEEFTEFLLKDDIVDYLLNQAEDEDDLIALALALEALLKLLQHGLLVER  536 (824)
T ss_pred             hcchhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccCCcccHHHHHHHHHHHHHHHhcchHHHH
Confidence            123445555543 3444 666666553221         111111111110 000     112344444   78888877


Q ss_pred             cCCceEe-cHHHHHHHHHH
Q 015918          341 EYNKIRM-HDLMRNMGREI  358 (398)
Q Consensus       341 ~~~~~~~-H~lir~~~~~~  358 (398)
                      +.+.|.+ |..+++|-...
T Consensus       537 ~~~~~~F~~~tFqey~~a~  555 (824)
T COG5635         537 AKIVYAFAHATFQEYFAAK  555 (824)
T ss_pred             hhhhHHHHHHHHHHHHHHH
Confidence            7777777 77788886544

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.33  E-value=0.016  Score=58.88  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...++|+|++|+|||||++.++.-
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35568999999999999999999865

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.31  E-value=0.016  Score=51.62  Aligned_cols=38  Identities=21%  Similarity=0.095  Sum_probs=30.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ....+++|.|++|+|||+++.+++.....+ -..+.|++
T Consensus        11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s   49 (242)
T cd00984          11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS   49 (242)
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence            456799999999999999999998875544 45567765

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.

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

Probab=96.31  E-value=0.0094  Score=59.72  Aligned_cols=53  Identities=17%  Similarity=0.172  Sum_probs=42.4

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ..++..+.|.+-.+.|.++..... ....+|+|+|++|+||||+++.++..+..
T Consensus       366 ~~pP~~f~rpeV~~iL~~~~~~r~-~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        366 LEIPEWFSFPEVVAELRRTYPPRH-KQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             CCCChhhcHHHHHHHHHHHhcccc-CCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            445567778888887777766554 55668999999999999999999998765

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.31  E-value=0.0075  Score=55.62  Aligned_cols=48  Identities=29%  Similarity=0.304  Sum_probs=36.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .++++++|-||+||||++..++-........+.-++    .++..++.+++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvS----tDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVS----TDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEE----eCCCCchHhhhc
Confidence            478999999999999999998888777765555555    555556555544

>PLN02200 adenylate kinase family protein

Probab=96.30  E-value=0.0043  Score=54.89  Aligned_cols=26  Identities=15%  Similarity=0.109  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+..++|.|++|+||||+|+.+++.+
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999999998764

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.27  E-value=0.042  Score=47.63  Aligned_cols=26  Identities=35%  Similarity=0.455  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++..
T Consensus        32 ~~G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          32 KAGEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            45568999999999999999999864

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.26  E-value=0.03  Score=50.20  Aligned_cols=124  Identities=14%  Similarity=0.098  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHhccccc---cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           29 IEEIVSEVLERLDDTF---ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        29 i~~~~~~~~~~l~~~~---~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      ++.......++-+...   +..+.|+|-..-.+.+.. +.... ...+.+.++|.+|+|||+-+.++++.    .+..+.
T Consensus        50 ~~a~ia~~le~~~~q~~~~~~~~~~l~tkt~r~~~~~-~~~A~-k~g~l~~vyg~~g~gKt~a~~~y~~s----~p~~~l  123 (297)
T COG2842          50 NEAKIAAFLEKKGVQAALEKLAPDFLETKTVRRIFFR-TRPAS-KTGSLVVVYGYAGLGKTQAAKNYAPS----NPNALL  123 (297)
T ss_pred             HHHHHHHHHcCCCcccccccccccccccchhHhHhhh-hhhhh-hcCceEEEeccccchhHHHHHhhccc----Ccccee
Confidence            4444444444433332   567788887765433332 22221 23348999999999999999999855    343344


Q ss_pred             EeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC
Q 015918          106 AHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH  164 (398)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~  164 (398)
                      +.    .++..+...++..+..........  ........+...+.+..-+|+.|+.+.
T Consensus       124 ~~----~~p~~~a~~~i~~i~~~~~~~~~~--~~~d~~~~~~~~l~~~~~~iivDEA~~  176 (297)
T COG2842         124 IE----ADPSYTALVLILIICAAAFGATDG--TINDLTERLMIRLRDTVRLIIVDEADR  176 (297)
T ss_pred             ec----CChhhHHHHHHHHHHHHHhcccch--hHHHHHHHHHHHHccCcceeeeehhhc
Confidence            44    555556666666666555443321  112244455555677777999999864

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=96.26  E-value=0.051  Score=57.65  Aligned_cols=27  Identities=22%  Similarity=0.171  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .+++|+|.+|+||||+++.+...+...
T Consensus       363 ~v~vv~G~AGTGKTT~l~~~~~~~e~~  389 (988)
T PRK13889        363 DLGVVVGYAGTGKSAMLGVAREAWEAA  389 (988)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            477899999999999988877666544

>PRK06761 hypothetical protein; Provisional

Probab=96.25  E-value=0.006  Score=55.15  Aligned_cols=28  Identities=29%  Similarity=0.312  Sum_probs=24.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++++|.|++|+||||+++.+++.+...
T Consensus         3 ~~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          3 TKLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            3589999999999999999999997654

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=96.25  E-value=0.027  Score=49.87  Aligned_cols=27  Identities=19%  Similarity=0.166  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....++|.|+.|+|||||++.++...
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          24 KEGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999998763

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. 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.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.24  E-value=0.0041  Score=51.03  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|+|++|+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999998876

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.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.24  E-value=0.023  Score=54.58  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+.|.||+|+|||||++.+.-.
T Consensus       361 ~G~~lgIIGPSgSGKSTLaR~lvG~  385 (580)
T COG4618         361 AGEALGIIGPSGSGKSTLARLLVGI  385 (580)
T ss_pred             CCceEEEECCCCccHHHHHHHHHcc
Confidence            3457899999999999999998754

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.24  E-value=0.022  Score=51.79  Aligned_cols=28  Identities=25%  Similarity=0.513  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .....++|.|+.|+|||||++.++.-..
T Consensus        28 ~~Ge~~~IvG~nGsGKSTLl~~L~gl~~   55 (275)
T cd03289          28 SPGQRVGLLGRTGSGKSTLLSAFLRLLN   55 (275)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhhcC
Confidence            4556899999999999999999987653

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.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.24  E-value=0.006  Score=52.17  Aligned_cols=43  Identities=23%  Similarity=0.216  Sum_probs=31.9

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.++|.+.....+.-...+     ..-+++.|++|+|||++|+.+..-
T Consensus         3 ~dI~GQe~aKrAL~iAAaG-----~h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG-----GHHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC-----C--EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhhcCcHHHHHHHHHHHcC-----CCCeEEECCCCCCHHHHHHHHHHh
Confidence            4677887777777666643     358999999999999999998864

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK13768 GTPase; Provisional

Probab=96.23  E-value=0.0072  Score=54.21  Aligned_cols=35  Identities=17%  Similarity=0.158  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+++|.|++|+||||++..+...+......+..+.
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~   37 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN   37 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence            57899999999999999999988766554455543

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.23  E-value=0.0038  Score=51.95  Aligned_cols=21  Identities=29%  Similarity=0.333  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|+|.+|+|||||+..+.+.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999977

>PLN02459 probable adenylate kinase

Probab=96.23  E-value=0.025  Score=50.41  Aligned_cols=23  Identities=26%  Similarity=0.318  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++|.|+||+||||++..+++.+
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~   53 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLL   53 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47778999999999999998875

>PRK14526 adenylate kinase; Provisional

Probab=96.23  E-value=0.021  Score=49.59  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++|.|++|+||||+++.++..+
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998664

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

Probab=96.23  E-value=0.007  Score=54.72  Aligned_cols=34  Identities=24%  Similarity=0.220  Sum_probs=29.4

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++.|.|++|+|||||+..++..++++. .+..+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK   35 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK   35 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence            4799999999999999999999998887 455554

>PRK10646 ADP-binding protein; Provisional

Probab=96.23  E-value=0.0082  Score=48.90  Aligned_cols=43  Identities=14%  Similarity=0.244  Sum_probs=32.9

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++.+++.+.|.... ....+|.+.|.=|+|||||++.+++.+.
T Consensus        11 ~~~t~~l~~~la~~l-~~g~vi~L~GdLGaGKTtf~rgl~~~Lg   53 (153)
T PRK10646         11 EQATLDLGARVAKAC-DGATVIYLYGDLGAGKTTFSRGFLQALG   53 (153)
T ss_pred             HHHHHHHHHHHHHhC-CCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            455666666665433 4456899999999999999999999853

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.22  E-value=0.0053  Score=57.11  Aligned_cols=48  Identities=15%  Similarity=0.153  Sum_probs=37.5

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +-..++|.+...+.+.-.+..   .+...+++.|++|+||||+|+.+..-+
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~---~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAID---PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhc---cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            345789999998887754432   233569999999999999999998875

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

Probab=96.21  E-value=0.0051  Score=53.43  Aligned_cols=26  Identities=31%  Similarity=0.367  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|+|++|+|||||++.++--
T Consensus        31 ~~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          31 ERGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            45568999999999999999999864

>TIGR00665 DnaB replicative DNA helicase

Probab=96.21  E-value=0.038  Score=53.86  Aligned_cols=72  Identities=19%  Similarity=0.148  Sum_probs=46.2

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      ...|-..-+..|-+.+. +- .+..+++|.|.+|+|||+++.+++..... .-..+.|++      ...+..++...+..
T Consensus       174 ~~~gi~tG~~~LD~~~~-G~-~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S------lEm~~~~i~~R~~~  245 (434)
T TIGR00665       174 GITGVPTGFTDLDKLTS-GL-QPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS------LEMSAEQLAMRMLS  245 (434)
T ss_pred             CCCcccCCchhhHhhcC-CC-CCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe------CcCCHHHHHHHHHH
Confidence            34455556666666553 22 45679999999999999999999987543 233456655      23344555555544


Q ss_pred             H
Q 015918          128 T  128 (398)
Q Consensus       128 ~  128 (398)
                      .
T Consensus       246 ~  246 (434)
T TIGR00665       246 S  246 (434)
T ss_pred             H
Confidence            3

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.21  E-value=0.02  Score=50.93  Aligned_cols=24  Identities=17%  Similarity=0.259  Sum_probs=21.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +.+|.|++|+|||+|+.+++..+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999998743

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.21  E-value=0.0057  Score=57.11  Aligned_cols=49  Identities=16%  Similarity=0.128  Sum_probs=39.9

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +-+.+||.++....|...+..   ++..-++|.|+.|+||||+|+.+++.+.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~---p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVID---PKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccC---CCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            446789999888888777765   4566788999999999999999987643

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

Probab=96.20  E-value=0.0057  Score=53.85  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=29.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .++..+++.|++|+||||+++.+...+..+......+
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYvi   53 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVI   53 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEE
Confidence            5667888999999999999999998877776543333

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.20  E-value=0.022  Score=57.62  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +....++|+|++|+|||||++.++..
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~  389 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRA  389 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45568999999999999999999875

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=96.19  E-value=0.027  Score=61.04  Aligned_cols=35  Identities=23%  Similarity=0.214  Sum_probs=27.0

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++|.+.+..     .++++|+|++|+||||.+=+++....
T Consensus        73 ~~Il~~l~~-----~~vvii~g~TGSGKTTqlPq~lle~~  107 (1283)
T TIGR01967        73 EDIAEAIAE-----NQVVIIAGETGSGKTTQLPKICLELG  107 (1283)
T ss_pred             HHHHHHHHh-----CceEEEeCCCCCCcHHHHHHHHHHcC
Confidence            555565533     45999999999999999988887643

This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	398
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-39
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-37
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-30
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-20
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	1e-12
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	2e-11

>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 =  150 bits (378), Expect = 1e-39
 Identities = 77/425 (18%), Positives = 146/425 (34%), Gaps = 94/425 (22%)

Query: 22  IRPESK---LIEEIVSEVLERLDDTFETENKL-VGVDSRIEEILSLLGVGLTMDTCK-LG 76
           I+ E +   ++  +  E  +RL +  +   K  V   SR++  L L    L +   K + 
Sbjct: 98  IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV---SRLQPYLKLRQALLELRPAKNVL 154

Query: 77  IWGIGGVGKT--AIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGN 134
           I G+ G GKT  A+      K+  + +   F  N++       + ++ ++LL  +  D N
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI--DPN 212

Query: 135 MNKFP----NIGLNFQS--KRLTR-------KKVLIVFDDVNHPRQIEFLIGNLDWFASG 181
                    NI L   S    L R       +  L+V  +V + +         + F   
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW-------NAFNLS 265

Query: 182 SRILITARDKQALINCGVNKIYQIKELVHV-------DALKLLNQCAFGRDHPDASYIEL 234
            +IL+T R KQ + +           L H        +   LL +        D    +L
Sbjct: 266 CKILLTTRFKQ-VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL------DCRPQDL 318

Query: 235 THEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKE 294
             E +      P  L I+   + R     W+N     + V   ++  +++ S + L+  E
Sbjct: 319 PREVLT---TNPRRLSIIAESI-RDGLATWDN----WKHVNCDKLTTIIESSLNVLEPAE 370

Query: 295 -KNIFLDIACFLVGEDRDIVTKYL---------NACEFFATSGIEVLVDKSLITI-SEYN 343
            + +F  ++ F       I T  L         +            L   SL+    + +
Sbjct: 371 YRKMFDRLSVFP--PSAHIPTILLSLIWFDVIKSDVMVVVNK----LHKYSLVEKQPKES 424

Query: 344 KIRMHDLMRNMGREIVRQESINDPSKRSRLWHHKEI---YEV--------LTENMVSNYD 392
            I +  +   +     + +  N+ +       H+ I   Y +        L    +  Y 
Sbjct: 425 TISIPSIYLEL-----KVKLENEYA------LHRSIVDHYNIPKTFDSDDLIPPYLDQY- 472

Query: 393 FASYF 397
           F S+ 
Sbjct: 473 FYSHI 477

>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 =  142 bits (358), Expect = 1e-37
 Identities = 52/363 (14%), Positives = 121/363 (33%), Gaps = 51/363 (14%)

Query: 47  ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK----ISRRFEG 102
           +      +  ++ ++  L     +D+  L + G  G GK+ IA    SK    I   ++ 
Sbjct: 127 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDS 186

Query: 103 SYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLN--------FQSKRLTRKK 154
             +  +   A +     DL  ++L  L ++ ++  FP++             +  + R  
Sbjct: 187 IVWLKDSGTAPK--STFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 244

Query: 155 VLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQ-ALINCGVNKIYQIKELVHVDA 213
            L VFDDV     I +            R L+T RD + +       +  ++  L   + 
Sbjct: 245 TLFVFDDVVQEETIRW------AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC 298

Query: 214 LKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEM 273
              L          +    ++ ++ I+ + G P  L +  +    K  E      +KLE 
Sbjct: 299 YDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLES 357

Query: 274 VPQMEIQ-----------EVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNAC-- 320
              + ++             L+   + L D++++              DI  K  +    
Sbjct: 358 RGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMP--PGVDIPVKLWSCVIP 415

Query: 321 -----------EFFATSGIEVLVDKSLITISEYNKI---RMHDLMRNMGREIVRQESIND 366
                      +      ++ L  +  +   +   +   ++  ++    + +V  ++I +
Sbjct: 416 VDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTIAN 475

Query: 367 PSK 369
              
Sbjct: 476 GIS 478

>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 =  121 bits (305), Expect = 3e-30
 Identities = 77/414 (18%), Positives = 139/414 (33%), Gaps = 73/414 (17%)

Query: 14  LSGFNSHVIRPESKLIEEIVSEVLERLDDTFETENKL----------------------- 50
           L   N   +   + L+ E   ++   L D     +                         
Sbjct: 61  LKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVP 120

Query: 51  ------VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFF---SKISRRFE 101
                 V     +  I   L   L  +   + I G+ G GK+ +A       S +   F 
Sbjct: 121 QRPVVFVTRKKLVNAIQQKL-SKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFP 179

Query: 102 GSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR------KKV 155
           G     +V + +++G L  L + L + L  D + ++   + +     RL         + 
Sbjct: 180 GGVHWVSVGKQDKSGLLMKL-QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRS 238

Query: 156 LIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALINCGVNK--IYQIKELVHVDA 213
           L++ DDV            L  F S  +IL+T RDK    +    K  +     L     
Sbjct: 239 LLILDDVWDSWV-------LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 291

Query: 214 LKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLE- 272
           L++L+         D    E  H  IK  +G P+ + ++G  L       WE  + +L+ 
Sbjct: 292 LEILSLFVN-MKKAD--LPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WEYYLKQLQN 347

Query: 273 ----------MVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYL----N 318
                           + E + IS + L +  K+ + D++     +D  + TK L    +
Sbjct: 348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQ--KDVKVPTKVLCILWD 405

Query: 319 ACEFFATSGIEVLVDKSLITISEYNKI---RMHDLMRNMGREIVRQESINDPSK 369
                    ++  V+KSL+      K     +HDL  +   E    +  +   K
Sbjct: 406 METEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKK 459

>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 = 93.4 bits (232), Expect = 1e-20
 Identities = 60/327 (18%), Positives = 122/327 (37%), Gaps = 43/327 (13%)

Query: 56  RIEEILSLLG-VGLTMDTCKL-GIWGIGGVGKTAIAGAF---FSKISRRFEGSYFAHNVR 110
           R + + ++   +           I+G+ G GK+ +A       S +   F G     ++ 
Sbjct: 129 RKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIG 188

Query: 111 EAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT------RKKVLIVFDDVNH 164
           + +++G L  L+  L   L  + + ++   + +     RL         + L++ DDV  
Sbjct: 189 KQDKSGLLMKLQ-NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD 247

Query: 165 PRQIEFLIGNLDWFASGSRILITARDKQALINC--GVNKIYQIKELVHVDALKLLNQCAF 222
           P  ++        F +  +IL+T RDK    +     + +     L     L++L+    
Sbjct: 248 PWVLKA-------FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV- 299

Query: 223 GRDHPDASYIELTHEAIKYAQGVPIALKILG----------RFLFRKRKEVWENAISKLE 272
             +          H  IK  +G P+ + ++G           +  R+ +      I K  
Sbjct: 300 --NMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSS 357

Query: 273 MVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNACEFFATSGI---- 328
                 + E + IS + L +  K+ + D++     +D  + TK L       T  +    
Sbjct: 358 SYDYEALDEAMSISVEMLREDIKDYYTDLSILQ--KDVKVPTKVLCVLWDLETEEVEDIL 415

Query: 329 EVLVDKSLITISEYNK---IRMHDLMR 352
           +  V+KSL+  +   K     +HDL  
Sbjct: 416 QEFVNKSLLFCNRNGKSFCYYLHDLQV 442

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score = 65.8 bits (161), Expect = 1e-12
 Identities = 7/41 (17%), Positives = 22/41 (53%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLD 41
           +Q W+ AL +V +L G++      +  + +++ +++   + 
Sbjct: 161 IQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHIS 201

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score = 61.4 bits (150), Expect = 2e-11
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 1   MQRWRSALTEVANLSGFNSHVIRPESKLIEEIVSEVLERLDDT 43
           + +WR ALT  A LSG  S     +SKL+++I +E+  +    
Sbjct: 133 VLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNKKTIY 173

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	398
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.88
2fna_A	357	Conserved hypothetical protein; structural genomic	99.86
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.79
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.72
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.72
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.7
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.66
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.56
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.51
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.41
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.35
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.3
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.29
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.27
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.2
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.16
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.12
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.1
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.06
3bos_A	242	Putative DNA replication factor; P-loop containing	99.06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.03
3pvs_A	447	Replication-associated recombination protein A; ma	99.0
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.98
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.94
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.92
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.92
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.92
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.91
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.91
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.9
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.88
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.85
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.85
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.85
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.83
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.82
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.82
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.8
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.79
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.78
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.75
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.67
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.66
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.63
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.58
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.58
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.57
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.55
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.54
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.5
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.48
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.46
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.45
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.45
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.45
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.44
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.41
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.36
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.35
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.33
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.31
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.29
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.26
3co5_A	143	Putative two-component system transcriptional RES	98.26
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.25
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.22
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.21
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.07
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.06
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.06
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.03
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.02
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.02
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.96
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.92
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.86
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.83
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.75
2qgz_A	308	Helicase loader, putative primosome component; str	97.66
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.62
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.61
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.6
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.51
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.41
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.36
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.36
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.36
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.35
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.23
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.21
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.19
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.18
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.15
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.13
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.13
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.11
3io5_A	333	Recombination and repair protein; storage dimer, i	97.1
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.09
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.08
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.07
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	97.05
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.01
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	97.0
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	96.92
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.9
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.9
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.9
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.86
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.85
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.83
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.83
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.83
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.82
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.81
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.8
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.8
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.79
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.79
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.77
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.77
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.77
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.76
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.75
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.74
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.73
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.73
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.72
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.7
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.7
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.7
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.7
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.67
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.67
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.67
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.67
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.66
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.66
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.65
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.64
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.64
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.62
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.62
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.61
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.6
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.59
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.59
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.59
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.59
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.57
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.56
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.56
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.55
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.52
1via_A	175	Shikimate kinase; structural genomics, transferase	96.51
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.51
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.51
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.5
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.49
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.49
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.49
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.48
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.47
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.47
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.47
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.47
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.46
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.45
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.45
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.44
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.44
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.42
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.42
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.41
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.4
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.4
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.38
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.38
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.38
3ice_A	422	Transcription termination factor RHO; transcriptio	96.38
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.36
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.36
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.35
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.34
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.34
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.33
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.33
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.32
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.31
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.3
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.3
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.29
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.28
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.27
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.27
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.26
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.25
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.25
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.25
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.24
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.23
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.23
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.19
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.19
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.17
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.17
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.17
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.17
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.15
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.13
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.13
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.12
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.11
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.09
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.09
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.08
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.08
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.07
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.06
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.06
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.05
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.05
2xxa_A	433	Signal recognition particle protein; protein trans	96.05
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.05
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.04
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.03
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.03
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.03
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.99
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.99
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.99
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.97
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.97
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.95
2og2_A	359	Putative signal recognition particle receptor; nuc	95.94
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.94
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.93
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.93
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.93
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	95.93
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.93
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	95.92
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.92
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.91
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.88
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.87
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.87
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.86
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.84
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.84
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.81
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.81
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.79
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.78
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.76
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.75
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.73
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.73
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.73
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.7
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.7
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.69
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.67
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.64
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.64
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.63
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.63
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.6
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.59
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.56
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.55
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.53
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.53
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.52
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.51
3end_A	307	Light-independent protochlorophyllide reductase ir	95.5
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.49
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.46
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.46
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.43
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.42
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.42
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.42
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.41
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.4
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.39
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	95.38
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.37
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.31
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.31
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.3
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.29
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.26
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.25
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.24
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.24
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.24
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.24
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.23
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.23
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.22
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.21
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.2
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.19
1g6h_A	257	High-affinity branched-chain amino acid transport	95.18
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.16
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.15
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.14
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.13
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.12
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.12
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.12
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.11
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.06
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.04
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.02
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.01
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.0
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.99
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.99
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.97
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.97
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.95
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.94
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	94.93
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	94.93
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.91
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.83
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.82
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.79
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.79
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.78
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.77
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.77
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.76
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.76
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.76
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.75
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.74
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.73
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.71
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.7
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.7
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.69
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.67
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.67
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.67
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.66
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.66
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.66
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.66
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.64
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.63
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.62
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.59
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.58
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.56
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.56
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.53
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.51
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.5
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.49
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.49
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.49
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.49
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.49
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.47
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.46
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.45
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	94.44
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.42
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.4
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.4
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	94.39
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.38
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.37
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.35
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.35
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.32
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.31
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.31
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.3
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.3
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.28
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.27
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	94.26
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.26
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.25
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.25
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.25
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.22
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	94.19
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.17
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.15
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.15
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.15
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.15
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.14
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.14
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.12
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.12
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.12
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.09
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.07
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.07
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.05
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.04
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.04
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.02
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.02
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.02
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.01
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	93.99
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.99
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.98
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.95
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.95
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.95
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.94
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.93
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.92
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.9
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.89
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.88
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.88
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.88
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.87
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.87
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.83
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	93.83
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.83
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.82
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	93.82
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	93.8
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.79
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.75
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.74
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.74
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.72
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.71
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.71
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.71
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.7
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.69
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.68
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.66
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.64
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.63
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.63
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.62
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.62
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	93.62
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.61
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.6
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.59
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.58
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.55
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	93.54
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	93.54
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.53
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.52
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.52
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	93.49
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.48
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.48
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.46
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	93.45
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.44
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.42
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	93.42
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.41
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.38
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.38
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.36
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.34
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	93.33
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.33
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	93.28
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	93.27
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.27
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.25
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.25
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.24
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.22
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	93.21
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.19
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.19
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.16
3igf_A	374	ALL4481 protein; two-domained protein consisting o	93.15
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.13
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.13
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.11
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.11

>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=3.9e-38  Score=313.10  Aligned_cols=299  Identities=16%  Similarity=0.184  Sum_probs=223.3

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHH----HhhccCcceEEEeechhhhhc--CCHHHHHHH
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFS----KISRRFEGSYFAHNVREAEET--GKLADLRKE  124 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~----~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~  124 (398)
                      +||+.++++|.++|........++|+|+|+||+||||||+++++    .+..+|+..+|++    ++..  .++..++..
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~----vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE----ECCCCCCCHHHHHHH
Confidence            49999999999999754324679999999999999999999997    5888999999997    4443  367888999


Q ss_pred             HHHHHhcCCC---CCCCCcc----chHHHHHhhCCc-eEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHHHh
Q 015918          125 LLSTLLNDGN---MNKFPNI----GLNFQSKRLTRK-KVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQALIN  196 (398)
Q Consensus       125 i~~~l~~~~~---~~~~~~~----~~~~l~~~l~~~-~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~~~  196 (398)
                      ++.++.....   .....+.    ....+...+.++ ++||||||+|+..++ .+...     ++++||||||+..+...
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~~-----~gs~ilvTTR~~~v~~~  280 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQE-----LRLRCLVTTRDVEISNA  280 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHHH-----TTCEEEEEESBGGGGGG
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccccc-----CCCEEEEEcCCHHHHHH
Confidence            9998876532   1111111    367788888896 999999999998765 33221     69999999999988876


Q ss_pred             cC-CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHH-HhccC
Q 015918          197 CG-VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAIS-KLEMV  274 (398)
Q Consensus       197 ~~-~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~-~l~~~  274 (398)
                      .. ....+++++|+.+++++||.+.++.... .+...+.+.+|++.|+|+||||+.+|..++... +.|...+. .+...
T Consensus       281 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~  358 (549)
T 2a5y_B          281 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESR  358 (549)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHH
T ss_pred             cCCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcc
Confidence            54 3357999999999999999998755432 356677899999999999999999999987764 22322222 11110


Q ss_pred             C-----------hhhHHHHHHHhHhcCchHHHHHHHHhhcCcCCcChHHHHHHHHhc--Cc-----------cccccHHH
Q 015918          275 P-----------QMEIQEVLKISYDGLDDKEKNIFLDIACFLVGEDRDIVTKYLNAC--EF-----------FATSGIEV  330 (398)
Q Consensus       275 ~-----------~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~~~~~~l~~~~~~~--~~-----------~~~~~l~~  330 (398)
                      .           -..+...++.+|..|++.++.+|.++|+||.+.+.+  ..+|.+.  +.           +...+++.
T Consensus       359 ~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~  436 (549)
T 2a5y_B          359 GLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKR  436 (549)
T ss_dssp             CSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHH
T ss_pred             cHHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHH
Confidence            1           134555666677777777777777999999886555  4566554  21           12247999


Q ss_pred             HhhccCeeecc---CCceEecHHHHHHHHHHHhhcC
Q 015918          331 LVDKSLITISE---YNKIRMHDLMRNMGREIVRQES  363 (398)
Q Consensus       331 L~~~~Ll~~~~---~~~~~~H~lir~~~~~~~~~~~  363 (398)
                      |++++|++...   .++|+||+++|+||++++.+.+
T Consensus       437 L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          437 LSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            99999998653   3469999999999998776654

>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=4.5e-35  Score=318.15  Aligned_cols=306  Identities=18%  Similarity=0.246  Sum_probs=237.1

Q ss_pred             cccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH---hhccCcceE-EEeechhhhhcCCH
Q 015918           43 TFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK---ISRRFEGSY-FAHNVREAEETGKL  118 (398)
Q Consensus        43 ~~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~---~~~~f~~~~-~~~~~~~~~~~~~~  118 (398)
                      .|+.++.||||+.++++|.+.|.... +..++++|+|+||+||||||++++++   ....|...+ |+. .... .....
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~-~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~-~~~~-~~~~~  195 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLN-GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVS-IGKQ-DKSGL  195 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTT-TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEE-CCSC-CHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhcc-CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEE-ECCc-CchHH
Confidence            34567789999999999999997554 67899999999999999999999977   345566555 665 2111 12223


Q ss_pred             HHHHHHHHHHHhcCCCCCCCC----ccchHHHHHhhCCc--eEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChh
Q 015918          119 ADLRKELLSTLLNDGNMNKFP----NIGLNFQSKRLTRK--KVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQ  192 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~----~~~~~~l~~~l~~~--~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~  192 (398)
                      ...+..++..+..........    +.....+...+.++  ++||||||+|+..++..+       .++++||+|||++.
T Consensus       196 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          196 LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTT
T ss_pred             HHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHH
Confidence            344555666665443221111    12556666667666  999999999998776654       57899999999997


Q ss_pred             HHHh-cCCCeeEEcCC-CChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHHH
Q 015918          193 ALIN-CGVNKIYQIKE-LVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISK  270 (398)
Q Consensus       193 ~~~~-~~~~~~~~l~~-L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~~  270 (398)
                      +... ......+.+++ |+.+++++||...+....   ....+.+.+|++.|+|+||||+.+|.+++..+ ..|...+..
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~  344 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQ  344 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHH
Confidence            7643 34556788986 999999999998773322   22335688999999999999999999998765 467777777


Q ss_pred             hccCC-----------hhhHHHHHHHhHhcCchHHHHHHHHhhcCcCC--cChHHHHHHHHhcCccccccHHHHhhccCe
Q 015918          271 LEMVP-----------QMEIQEVLKISYDGLDDKEKNIFLDIACFLVG--EDRDIVTKYLNACEFFATSGIEVLVDKSLI  337 (398)
Q Consensus       271 l~~~~-----------~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~~Ll  337 (398)
                      +....           ...+..++..+|+.|+++++.+|.++|+||.+  ++.+.+..+|..+....+..++.|++++|+
T Consensus       345 l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~  424 (1249)
T 3sfz_A          345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLL  424 (1249)
T ss_dssp             HHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSC
T ss_pred             HhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccce
Confidence            65432           24689999999999999999999999999986  889999999988777788999999999999


Q ss_pred             eeccCCc---eEecHHHHHHHHHHHhhc
Q 015918          338 TISEYNK---IRMHDLMRNMGREIVRQE  362 (398)
Q Consensus       338 ~~~~~~~---~~~H~lir~~~~~~~~~~  362 (398)
                      +...++.   |+||+++|+|+++.+.++
T Consensus       425 ~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          425 FCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             EEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             EEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            9876664   999999999999987654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=1.1e-34  Score=291.62  Aligned_cols=299  Identities=19%  Similarity=0.224  Sum_probs=223.2

Q ss_pred             cccccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh---hccCc-ceEEEeechhhhhcCCH
Q 015918           43 TFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI---SRRFE-GSYFAHNVREAEETGKL  118 (398)
Q Consensus        43 ~~~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~---~~~f~-~~~~~~~~~~~~~~~~~  118 (398)
                      .|+.++.||||+.+++.|.++|.... +..++++|+|++|+||||||.++++..   ...|+ .++|++.    +.. +.
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~----~~~-~~  192 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLK-GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSV----GKQ-DK  192 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTST-TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEE----ESC-CH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhccc-CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEEC----CCC-ch
Confidence            34677889999999999999998644 567899999999999999999999764   67785 5777762    221 22


Q ss_pred             HHHHHH---HHHHHhcCCCC----CCCCccchHHHHHhhCC--ceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeC
Q 015918          119 ADLRKE---LLSTLLNDGNM----NKFPNIGLNFQSKRLTR--KKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       119 ~~~~~~---i~~~l~~~~~~----~~~~~~~~~~l~~~l~~--~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      ..+...   +...+......    ....+.....+...+.+  +++||||||+|+...+..+       .++++||+|||
T Consensus       193 ~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR  265 (591)
T 1z6t_A          193 SGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTR  265 (591)
T ss_dssp             HHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEES
T ss_pred             HHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECC
Confidence            223333   33333321111    01111144555555554  7899999999987766543       56899999999


Q ss_pred             ChhHHHhcCCCeeEEc---CCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHH
Q 015918          190 DKQALINCGVNKIYQI---KELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWEN  266 (398)
Q Consensus       190 ~~~~~~~~~~~~~~~l---~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~  266 (398)
                      +..+..... ...+++   ++|+.+|+.+||...++..   .....+.+..+++.|+|+|++|++++..+...+ ..|..
T Consensus       266 ~~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~  340 (591)
T 1z6t_A          266 DKSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEY  340 (591)
T ss_dssp             CGGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHH
T ss_pred             CcHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHH
Confidence            987765533 234444   5899999999999887432   112235588999999999999999999998754 35777


Q ss_pred             HHHHhccCC-----------hhhHHHHHHHhHhcCchHHHHHHHHhhcCcCC--cChHHHHHHHHhcCccccccHHHHhh
Q 015918          267 AISKLEMVP-----------QMEIQEVLKISYDGLDDKEKNIFLDIACFLVG--EDRDIVTKYLNACEFFATSGIEVLVD  333 (398)
Q Consensus       267 ~~~~l~~~~-----------~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~  333 (398)
                      .+..+....           ..++..++..+|+.|++..+.+|.++|+||.+  ++.+.+..+|+.+.......++.|++
T Consensus       341 ~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~  420 (591)
T 1z6t_A          341 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVN  420 (591)
T ss_dssp             HHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHh
Confidence            777665332           24789999999999999999999999999875  88889999998766667889999999


Q ss_pred             ccCeeeccCC---ceEecHHHHHHHHHHH
Q 015918          334 KSLITISEYN---KIRMHDLMRNMGREIV  359 (398)
Q Consensus       334 ~~Ll~~~~~~---~~~~H~lir~~~~~~~  359 (398)
                      ++|+....++   +|+||+++|+|+++..
T Consensus       421 ~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          421 KSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             TTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             CcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            9999865432   6999999999999883

>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=1.4e-33  Score=286.57  Aligned_cols=278  Identities=14%  Similarity=0.102  Sum_probs=210.5

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH--hhccCcc-eEEEeechhhhhcCCHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK--ISRRFEG-SYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~--~~~~f~~-~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      +..|||+.++++|.++|...  ...++++|+|++|+||||||++++++  +..+|+. ++|++    ++...+...++..
T Consensus       128 k~~VGRe~eLeeL~elL~~~--d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVs----Vs~~~d~~~IL~~  201 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLEL--RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----LKNCNSPETVLEM  201 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHC--CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEE----CCCSSSHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhcc--CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEE----eCCCCCHHHHHHH
Confidence            34599999999999999753  34789999999999999999999974  6788987 78887    5555566666666


Q ss_pred             HHHHHhcCCC--CCCCC---------ccchHHHHHhh---CCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          125 LLSTLLNDGN--MNKFP---------NIGLNFQSKRL---TRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       125 i~~~l~~~~~--~~~~~---------~~~~~~l~~~l---~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      +...+.....  .....         +.....+...+   .++++||||||+|+...++.+.       ++++||||||+
T Consensus       202 Ll~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd  274 (1221)
T 1vt4_I          202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRF  274 (1221)
T ss_dssp             HHHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSC
T ss_pred             HHHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccC
Confidence            6654432210  00000         01234455544   6799999999999988888762       68999999999


Q ss_pred             hhHHHhcCCCeeEEcC------CCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccC--CHH
Q 015918          191 KQALINCGVNKIYQIK------ELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRK--RKE  262 (398)
Q Consensus       191 ~~~~~~~~~~~~~~l~------~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~--~~~  262 (398)
                      ..+.........+.++      +|+.+|+++||.+.. +.. .    .++..   +.|+|+|+||+.+|..++..  ...
T Consensus       275 ~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-~----eeL~~---eICgGLPLALkLaGs~Lr~k~~s~e  345 (1221)
T 1vt4_I          275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-P----QDLPR---EVLTTNPRRLSIIAESIRDGLATWD  345 (1221)
T ss_dssp             SHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-T----TTHHH---HHCCCCHHHHHHHHHHHHHSCSSHH
T ss_pred             hHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-H----HHHHH---HHhCCCHHHHHHHHHHHhCCCCCHH
Confidence            9876533222234555      899999999999885 322 1    12233   34999999999999999875  566


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHhHhcCchHH-HHHHHHhhcCcCC--cChHHHHHHHHhcC-ccccccHHHHhhccCee
Q 015918          263 VWENAISKLEMVPQMEIQEVLKISYDGLDDKE-KNIFLDIACFLVG--EDRDIVTKYLNACE-FFATSGIEVLVDKSLIT  338 (398)
Q Consensus       263 ~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~-~~~l~~la~~~~~--~~~~~l~~~~~~~~-~~~~~~l~~L~~~~Ll~  338 (398)
                      .|...       ....+..++..+|+.|+++. |.||+++|+||.+  ++.+.+..+|..++ ......++.|++++|++
T Consensus       346 eW~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq  418 (1221)
T 1vt4_I          346 NWKHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE  418 (1221)
T ss_dssp             HHHHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSS
T ss_pred             HHhcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEE
Confidence            67542       35779999999999999999 9999999999976  77888999998763 34678899999999999


Q ss_pred             ecc-CCceEecHHHHHH
Q 015918          339 ISE-YNKIRMHDLMRNM  354 (398)
Q Consensus       339 ~~~-~~~~~~H~lir~~  354 (398)
                      ..+ .++|+||+++++.
T Consensus       419 ~d~~~~rYrMHDLllEL  435 (1221)
T 1vt4_I          419 KQPKESTISIPSIYLEL  435 (1221)
T ss_dssp             BCSSSSEEBCCCHHHHH
T ss_pred             EeCCCCEEEehHHHHHH
Confidence            763 5689999998873

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.88  E-value=3e-21  Score=180.95  Aligned_cols=290  Identities=14%  Similarity=0.102  Sum_probs=178.0

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhh--hhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREA--EETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~--~~~~~~~~~~  122 (398)
                      ..++.|+||+.+++.|.+++..   +  ++++|+|++|+|||||++++++...     .+|+......  ....+...+.
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~---~--~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLEN---Y--PLTLLLGIRRVGKSSLLRAFLNERP-----GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH---C--SEEEEECCTTSSHHHHHHHHHHHSS-----EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhc---C--CeEEEECCCcCCHHHHHHHHHHHcC-----cEEEEeecccccccCCCHHHHH
Confidence            5677899999999999999864   2  6999999999999999999998751     5666521111  0012444555


Q ss_pred             HHHHHHHhc---------------CCCCC-CCCcc--chHHHHHhhCC-ceEEEEEeCCCChH--------hHHHHHccC
Q 015918          123 KELLSTLLN---------------DGNMN-KFPNI--GLNFQSKRLTR-KKVLIVFDDVNHPR--------QIEFLIGNL  175 (398)
Q Consensus       123 ~~i~~~l~~---------------~~~~~-~~~~~--~~~~l~~~l~~-~~~LlvlDd~~~~~--------~~~~l~~~l  175 (398)
                      ..+...+..               ....+ .....  ....+...... ++++|||||++...        .+..++..+
T Consensus        79 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~  158 (350)
T 2qen_A           79 KELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYA  158 (350)
T ss_dssp             HHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHH
Confidence            444443321               00000 00011  22233333322 38999999997532        222222221


Q ss_pred             CCCCCCcEEEEEeCChhHHHh-----------c-CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcC
Q 015918          176 DWFASGSRILITARDKQALIN-----------C-GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQ  243 (398)
Q Consensus       176 ~~~~~~~~iliTsR~~~~~~~-----------~-~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~  243 (398)
                      ....+++++|+|++.......           . .....+.+.||+.+|+.+++..........  ...+.+..+++.|+
T Consensus       159 ~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~--~~~~~~~~i~~~tg  236 (350)
T 2qen_A          159 YDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD--VPENEIEEAVELLD  236 (350)
T ss_dssp             HHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHHT
T ss_pred             HHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhC
Confidence            111247889999887643111           1 123579999999999999998754222211  22456889999999


Q ss_pred             CChHHHHHHHHHhcc-CCHHHHHHHHHHhccCChhhHHHHHHHhHhcC---chHHHHHHHHhhcCcCCcChHHHHHHHH-
Q 015918          244 GVPIALKILGRFLFR-KRKEVWENAISKLEMVPQMEIQEVLKISYDGL---DDKEKNIFLDIACFLVGEDRDIVTKYLN-  318 (398)
Q Consensus       244 g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L---~~~~~~~l~~la~~~~~~~~~~l~~~~~-  318 (398)
                      |+|+++..++..+.. .....+   ...+    ...+...+...+..+   ++..+.++..+|+ + ..+.+.+...+. 
T Consensus       237 G~P~~l~~~~~~~~~~~~~~~~---~~~~----~~~~~~~~~~~l~~l~~~~~~~~~~l~~la~-g-~~~~~~l~~~~~~  307 (350)
T 2qen_A          237 GIPGWLVVFGVEYLRNGDFGRA---MKRT----LEVAKGLIMGELEELRRRSPRYVDILRAIAL-G-YNRWSLIRDYLAV  307 (350)
T ss_dssp             TCHHHHHHHHHHHHHHCCHHHH---HHHH----HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHT-T-CCSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccccHhHH---HHHH----HHHHHHHHHHHHHHHHhCChhHHHHHHHHHh-C-CCCHHHHHHHHHH
Confidence            999999999876533 222111   1111    111222233334444   7888999998988 3 466677766652 


Q ss_pred             ----hcCccccccHHHHhhccCeeeccCCceEe-cHHHHHHHH
Q 015918          319 ----ACEFFATSGIEVLVDKSLITISEYNKIRM-HDLMRNMGR  356 (398)
Q Consensus       319 ----~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~-H~lir~~~~  356 (398)
                          .+......+++.|.+.+||... ++.|++ ||++++|.+
T Consensus       308 ~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          308 KGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             HhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence                2223345789999999999987 566766 999999864

>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=99.86  E-value=3.9e-20  Score=173.72  Aligned_cols=286  Identities=13%  Similarity=0.101  Sum_probs=171.4

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhh-hhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREA-EETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~~~  123 (398)
                      ..+..|+||+.+++.|.+ +..      ++++|+|++|+|||+|++++++.....   .+|+...... ....+...+..
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~------~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA------PITLVLGLRRTGKSSIIKIGINELNLP---YIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS------SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CCHHHhcChHHHHHHHHH-hcC------CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEEEchhhccccCCCHHHHHH
Confidence            567789999999999999 753      599999999999999999999886533   4666522110 00122333333


Q ss_pred             HHHHHHhc-------------CCC---CCC----C-----CccchHHHHHhhCC---ceEEEEEeCCCChH-----hHHH
Q 015918          124 ELLSTLLN-------------DGN---MNK----F-----PNIGLNFQSKRLTR---KKVLIVFDDVNHPR-----QIEF  170 (398)
Q Consensus       124 ~i~~~l~~-------------~~~---~~~----~-----~~~~~~~l~~~l~~---~~~LlvlDd~~~~~-----~~~~  170 (398)
                      .+...+..             ...   .+.    .     .......+...+..   ++++|||||++...     .+..
T Consensus        80 ~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           80 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHH
Confidence            33332210             000   000    0     01112222222211   49999999996432     2222


Q ss_pred             HHccCCCCCCCcEEEEEeCChhHHHh-----------cCC-CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHH
Q 015918          171 LIGNLDWFASGSRILITARDKQALIN-----------CGV-NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEA  238 (398)
Q Consensus       171 l~~~l~~~~~~~~iliTsR~~~~~~~-----------~~~-~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i  238 (398)
                      ++..+....++.++|+|++.......           ... ...+.+.+|+.+|+.+++.............    ...+
T Consensus       160 ~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i  235 (357)
T 2fna_A          160 ALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVV  235 (357)
T ss_dssp             HHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHH
T ss_pred             HHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHH
Confidence            22221111246789999987643221           111 3679999999999999998754211111111    3789


Q ss_pred             HHHcCCChHHHHHHHHHhcc-CCHHHHHHHHHHhccCChhhHHHHHHHhHh-------cCchHHHHHHHHhhcCcCCcCh
Q 015918          239 IKYAQGVPIALKILGRFLFR-KRKEVWENAISKLEMVPQMEIQEVLKISYD-------GLDDKEKNIFLDIACFLVGEDR  310 (398)
Q Consensus       239 ~~~~~g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~-------~L~~~~~~~l~~la~~~~~~~~  310 (398)
                      ++.|+|+|+++..++..+.. .....+.   ..+.    ..+...+...+.       .+++..+.++..+|+ + . +.
T Consensus       236 ~~~t~G~P~~l~~~~~~~~~~~~~~~~~---~~~~----~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~-g-~-~~  305 (357)
T 2fna_A          236 YEKIGGIPGWLTYFGFIYLDNKNLDFAI---NQTL----EYAKKLILKEFENFLHGREIARKRYLNIMRTLSK-C-G-KW  305 (357)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHHCCHHHHH---HHHH----HHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT-C-B-CH
T ss_pred             HHHhCCCHHHHHHHHHHHccccchHHHH---HHHH----HHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc-C-C-CH
Confidence            99999999999999887643 2222221   1110    111122222222       688899999999998 3 3 66


Q ss_pred             HHHHHHH----H--hcCccccccHHHHhhccCeeeccCCceEe-cHHHHHHH
Q 015918          311 DIVTKYL----N--ACEFFATSGIEVLVDKSLITISEYNKIRM-HDLMRNMG  355 (398)
Q Consensus       311 ~~l~~~~----~--~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~-H~lir~~~  355 (398)
                      +.+...+    +  .+.......++.|.+.+||... ++.|++ ||+++++.
T Consensus       306 ~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~-~~~y~f~~~~~~~~l  356 (357)
T 2fna_A          306 SDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKE-GEKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEES-SSCEEESSHHHHHHT
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEec-CCEEEecCHHHHHhh
Confidence            7766443    2  1223356789999999999987 466776 99999875

>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=99.79  E-value=3.7e-18  Score=163.63  Aligned_cols=286  Identities=12%  Similarity=0.036  Sum_probs=169.9

Q ss_pred             cccCcccccchhHHHHHHHh-ccC-CC--CCceEEEE--EcCCCccHHHHHHHHHHHhhcc-----Cc-ceEEEeechhh
Q 015918           45 ETENKLVGVDSRIEEILSLL-GVG-LT--MDTCKLGI--WGIGGVGKTAIAGAFFSKISRR-----FE-GSYFAHNVREA  112 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L-~~~-~~--~~~~~i~I--~G~~G~GKTtLa~~~~~~~~~~-----f~-~~~~~~~~~~~  112 (398)
                      ..+..|+||+.+++.|.+++ ... ..  ...+.++|  +|++|+|||||++.+++.....     +. ..+|+.    .
T Consensus        19 ~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~----~   94 (412)
T 1w5s_A           19 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----A   94 (412)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----G
T ss_pred             cCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE----C
Confidence            34578999999999999988 421 10  23567888  9999999999999999886553     12 245555    3


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCC-CccchHHHHHhhC--CceEEEEEeCCCCh--------HhHHHHHccCCCC---
Q 015918          113 EETGKLADLRKELLSTLLNDGNMNKF-PNIGLNFQSKRLT--RKKVLIVFDDVNHP--------RQIEFLIGNLDWF---  178 (398)
Q Consensus       113 ~~~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~l~~~l~--~~~~LlvlDd~~~~--------~~~~~l~~~l~~~---  178 (398)
                      ........++..++..+......... .......+...+.  +++++|||||++..        ..+..+...+...   
T Consensus        95 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~  174 (412)
T 1w5s_A           95 FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR  174 (412)
T ss_dssp             GGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT
T ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccC
Confidence            34456778888888877543221011 1112334444443  67999999999643        2333332222111   


Q ss_pred             C--CCcEEEEEeCChhHHH--------h-cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcC----
Q 015918          179 A--SGSRILITARDKQALI--------N-CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQ----  243 (398)
Q Consensus       179 ~--~~~~iliTsR~~~~~~--------~-~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~----  243 (398)
                      .  ....+|+||+......        . ......+.+++++.+++.+++..++...........+....+++.++    
T Consensus       175 ~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  254 (412)
T 1w5s_A          175 DGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKG  254 (412)
T ss_dssp             TSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGT
T ss_pred             CCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhcc
Confidence            2  4456777886554221        1 11233499999999999999976542111111233567889999999    


Q ss_pred             --CChHHHHHHHHHhcc------C---CHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCc----CCc
Q 015918          244 --GVPIALKILGRFLFR------K---RKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFL----VGE  308 (398)
Q Consensus       244 --g~Pl~i~~l~~~l~~------~---~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~----~~~  308 (398)
                        |+|..+..++.....      .   ....+........   .   ...+...+..|++..+.++..++.+.    ..+
T Consensus       255 ~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~---~---~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~  328 (412)
T 1w5s_A          255 GDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENE---A---ASIQTHELEALSIHELIILRLIAEATLGGMEWI  328 (412)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------CCSSSSSCHHHHHHHHHHHHHHHTTCSSB
T ss_pred             CCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh---c---cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCc
Confidence              999877766543311      0   1122222222110   0   23344566889999999998888753    235


Q ss_pred             ChHHHHH----HH-HhcC------ccccccHHHHhhccCeeec
Q 015918          309 DRDIVTK----YL-NACE------FFATSGIEVLVDKSLITIS  340 (398)
Q Consensus       309 ~~~~l~~----~~-~~~~------~~~~~~l~~L~~~~Ll~~~  340 (398)
                      +...+..    +. ...+      .....+++.|.+.|||...
T Consensus       329 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          329 NAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             CHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             cHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEee
Confidence            5543322    22 1111      1234679999999999864

>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=99.72  E-value=2.3e-15  Score=142.79  Aligned_cols=279  Identities=13%  Similarity=0.003  Sum_probs=171.3

Q ss_pred             ccCcccccchhHHHHHHHhccC-CCCCceEEEEEcCCCccHHHHHHHHHHHhhcc--------CcceEEEeechhhhhcC
Q 015918           46 TENKLVGVDSRIEEILSLLGVG-LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR--------FEGSYFAHNVREAEETG  116 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~-~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~--------f~~~~~~~~~~~~~~~~  116 (398)
                      .+..|+||+.+++.+.+++... .....+.++|+|++|+|||+||+.+++.+...        ....+|+.    .....
T Consensus        18 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~----~~~~~   93 (384)
T 2qby_B           18 VFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN----CREVG   93 (384)
T ss_dssp             HCSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE----HHHHC
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE----CccCC
Confidence            3478999999999999887642 11456789999999999999999999886443        23345555    33444


Q ss_pred             -CHHHHHHHHHHHHhcCCCCCCCC--ccchHHHHHhhCCceEEEEEeCCCChHh-------HHHHHccCCCCCCCcEEEE
Q 015918          117 -KLADLRKELLSTLLNDGNMNKFP--NIGLNFQSKRLTRKKVLIVFDDVNHPRQ-------IEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       117 -~~~~~~~~i~~~l~~~~~~~~~~--~~~~~~l~~~l~~~~~LlvlDd~~~~~~-------~~~l~~~l~~~~~~~~ili  186 (398)
                       +...++..++..+..........  ......+...+...+.+|+|||++....       +..+....    .+..+|+
T Consensus        94 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~  169 (384)
T 2qby_B           94 GTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIM  169 (384)
T ss_dssp             SCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEE
T ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEE
Confidence             67777788877774332211111  1234555566666656999999975432       22332222    6778888


Q ss_pred             EeCChhHHH----h--cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcC---CChHHHHHHHHHhc
Q 015918          187 TARDKQALI----N--CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQ---GVPIALKILGRFLF  257 (398)
Q Consensus       187 TsR~~~~~~----~--~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~---g~Pl~i~~l~~~l~  257 (398)
                      ||+......    .  ......+.+++++.++..+++...+...........+..+.+++.++   |+|..+..++....
T Consensus       170 ~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~  249 (384)
T 2qby_B          170 ISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAA  249 (384)
T ss_dssp             ECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             EECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            887653111    1  12234899999999999999998753111111222356778888888   99985543333321


Q ss_pred             c-------CCHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhc-Cc-CCcChHHHHHHHHhcC------c
Q 015918          258 R-------KRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIAC-FL-VGEDRDIVTKYLNACE------F  322 (398)
Q Consensus       258 ~-------~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~-~~-~~~~~~~l~~~~~~~~------~  322 (398)
                      .       -....+..++...       ....+...+..|++..+.++..++. .. .++ .+....+...-+      .
T Consensus       250 ~~a~~~~~i~~~~v~~~~~~~-------~~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~-~~~~~~~~~~~g~~~~~~~  321 (384)
T 2qby_B          250 QLASGGGIIRKEHVDKAIVDY-------EQERLIEAVKALPFHYKLALRSLIESEDVMSA-HKMYTDLCNKFKQKPLSYR  321 (384)
T ss_dssp             HHTTSSSCCCHHHHHHHHHHH-------HHHHHHHHHHSSCHHHHHHHHHHHTCCBHHHH-HHHHHHHHHHTTCCCCCHH
T ss_pred             HHhcCCCccCHHHHHHHHHHH-------hcchHHHHHHcCCHHHHHHHHHHHHhcccChH-HHHHHHHHHHcCCCCCCHH
Confidence            1       1234444444332       1234566778899999998887776 21 111 112223332211      1


Q ss_pred             cccccHHHHhhccCeeec
Q 015918          323 FATSGIEVLVDKSLITIS  340 (398)
Q Consensus       323 ~~~~~l~~L~~~~Ll~~~  340 (398)
                      ....+++.|...|+++..
T Consensus       322 ~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          322 RFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhCCCEEEE
Confidence            234578999999999864

>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=99.72  E-value=2e-15  Score=143.43  Aligned_cols=305  Identities=12%  Similarity=0.040  Sum_probs=184.0

Q ss_pred             ccCcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEEEeechhhhhcCCHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      .++.|+||+.+++.+..++...   ..+..+.++|+|++|+|||||++.+++...... ...+++.    .....+...+
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~----~~~~~~~~~~   90 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAI   90 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe----CccCCCHHHH
Confidence            3478999999999999988642   112334899999999999999999999876552 3345555    3444556677


Q ss_pred             HHHHHHHHhcCCCCCCCC-ccchHHHHHhh--CCceEEEEEeCCCC--hHhHHHHHccCCCCC----CCcEEEEEeCChh
Q 015918          122 RKELLSTLLNDGNMNKFP-NIGLNFQSKRL--TRKKVLIVFDDVNH--PRQIEFLIGNLDWFA----SGSRILITARDKQ  192 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~-~~~~~~l~~~l--~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~----~~~~iliTsR~~~  192 (398)
                      ...++..+.......... ......+...+  .+++.+|+||+++.  ......+...+....    .+..+|++++...
T Consensus        91 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~  170 (389)
T 1fnn_A           91 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDA  170 (389)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTH
T ss_pred             HHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCch
Confidence            777777664332110111 11223333333  35689999999974  344555544443221    3667888877653


Q ss_pred             HHHhcC-------CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHc---------CCChHHHHHHHHHh
Q 015918          193 ALINCG-------VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYA---------QGVPIALKILGRFL  256 (398)
Q Consensus       193 ~~~~~~-------~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~---------~g~Pl~i~~l~~~l  256 (398)
                      ......       ....+.+++++.++..+++...+...........+....+++.+         .|+|..+..++...
T Consensus       171 ~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a  250 (389)
T 1fnn_A          171 VLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS  250 (389)
T ss_dssp             HHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHH
T ss_pred             HHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHH
Confidence            322221       22369999999999999998876321111233457788999999         79998777665543


Q ss_pred             cc---------CCHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCc----C-CcChHHHHHHHHh---
Q 015918          257 FR---------KRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFL----V-GEDRDIVTKYLNA---  319 (398)
Q Consensus       257 ~~---------~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~----~-~~~~~~l~~~~~~---  319 (398)
                      ..         -..............       ..+...+..|++..+.++..++.+.    . .++.+.+......   
T Consensus       251 ~~~a~~~~~~~i~~~~v~~~~~~~~~-------~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~  323 (389)
T 1fnn_A          251 AYAAQQNGRKHIAPEDVRKSSKEVLF-------GISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCE  323 (389)
T ss_dssp             HHHHHHTTCSSCCHHHHHHHHHHHSC-------CCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHhh-------hhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHH
Confidence            21         112233333222211       1223446788899998888777653    1 3555555443322   


Q ss_pred             ----cC---ccccccHHHHhhccCeeeccC-------Cce-------EecHHHHHHHHHHHhh
Q 015918          320 ----CE---FFATSGIEVLVDKSLITISEY-------NKI-------RMHDLMRNMGREIVRQ  361 (398)
Q Consensus       320 ----~~---~~~~~~l~~L~~~~Ll~~~~~-------~~~-------~~H~lir~~~~~~~~~  361 (398)
                          ..   ......++.|...|++.....       |++       ..|++...+..+++.+
T Consensus       324 ~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~  386 (389)
T 1fnn_A          324 EYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKE  386 (389)
T ss_dssp             HTTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             HcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHH
Confidence                11   123467999999999997533       322       2356666665555543

>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=99.70  E-value=8.6e-16  Score=145.60  Aligned_cols=284  Identities=15%  Similarity=0.058  Sum_probs=168.6

Q ss_pred             cccCcccccchhHHHHHHHhccC--CCCCceEEEEEcCCCccHHHHHHHHHHHhhccC---cceEEEeechhhhhcCCHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG--LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF---EGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~--~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f---~~~~~~~~~~~~~~~~~~~  119 (398)
                      ..+..|+||+.+++.+.+++...  . ...+.++|+|++|+|||||++.+++.+...+   ...+|+.    ........
T Consensus        17 ~~p~~~~gr~~e~~~l~~~l~~~~~~-~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~----~~~~~~~~   91 (386)
T 2qby_A           17 YIPDELPHREDQIRKIASILAPLYRE-EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN----TRQIDTPY   91 (386)
T ss_dssp             CCCSCCTTCHHHHHHHHHSSGGGGGT-CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE----HHHHCSHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcC-CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE----CCCCCCHH
Confidence            34578999999999999998742  2 4567899999999999999999999876542   2345555    33344555


Q ss_pred             HHHHHHHHHHhcCCCCCCC-CccchHHHHHhh--CCceEEEEEeCCCCh------HhHHHHHccCCC-CCCCcEEEEEeC
Q 015918          120 DLRKELLSTLLNDGNMNKF-PNIGLNFQSKRL--TRKKVLIVFDDVNHP------RQIEFLIGNLDW-FASGSRILITAR  189 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~-~~~~~~~l~~~l--~~~~~LlvlDd~~~~------~~~~~l~~~l~~-~~~~~~iliTsR  189 (398)
                      .+...++..+......... .......+...+  .+++.+||||+++..      ..+..+...+.. ...+..+|++|+
T Consensus        92 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~  171 (386)
T 2qby_A           92 RVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITN  171 (386)
T ss_dssp             HHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEES
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEEC
Confidence            6666665555322111010 011233333333  245899999999642      233333332211 134566777887


Q ss_pred             ChhHHHhc------C-CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcC---CChHHHHHHHHHhcc-
Q 015918          190 DKQALINC------G-VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQ---GVPIALKILGRFLFR-  258 (398)
Q Consensus       190 ~~~~~~~~------~-~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~---g~Pl~i~~l~~~l~~-  258 (398)
                      ........      . ....+.+++++.++..+++...+...........+....+++.++   |+|..+..++..... 
T Consensus       172 ~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~  251 (386)
T 2qby_A          172 DVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEI  251 (386)
T ss_dssp             CGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            65432221      1 125899999999999999987652111112233566788888888   999965554443311 


Q ss_pred             --------CCHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCc----CCcChHHH-------HHHHHh
Q 015918          259 --------KRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFL----VGEDRDIV-------TKYLNA  319 (398)
Q Consensus       259 --------~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~----~~~~~~~l-------~~~~~~  319 (398)
                              -....+..+....       ....+...+..+++..+.++..++.+.    ..++.+.+       ...++.
T Consensus       252 a~~~~~~~i~~~~v~~a~~~~-------~~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~  324 (386)
T 2qby_A          252 AERMKDTKVKEEYVYMAKEEI-------ERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGV  324 (386)
T ss_dssp             HHHTTCSSCCHHHHHHHHHHH-------HHHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTC
T ss_pred             HHhcCCCccCHHHHHHHHHHH-------hhchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCC
Confidence                    1223333333322       234566778889999998888777532    11334322       222221


Q ss_pred             cC---ccccccHHHHhhccCeeec
Q 015918          320 CE---FFATSGIEVLVDKSLITIS  340 (398)
Q Consensus       320 ~~---~~~~~~l~~L~~~~Ll~~~  340 (398)
                      ..   .....+++.|...|+++..
T Consensus       325 ~~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          325 EAVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             CCCCHHHHHHHHHHHHhCCCEEEE
Confidence            22   2245679999999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.66  E-value=8.4e-15  Score=138.85  Aligned_cols=284  Identities=13%  Similarity=0.045  Sum_probs=168.3

Q ss_pred             ccCcccccchhHHHHHHHhccCC-CCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEeechhhhhcCCH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~  118 (398)
                      .++.|+||+.+++.+..++.... ....+.++|+||+|+|||||++.+++.+...      ....+|+.    .....+.
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~----~~~~~~~   92 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVN----ARHRETP   92 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEE----TTTSCSH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEE----CCcCCCH
Confidence            34789999999999999985431 1456789999999999999999999886443      22344554    4445566


Q ss_pred             HHHHHHHHHHHhcCCCCCCC-CccchHHHHHhh--CCceEEEEEeCCCChHh----HHHH---HccCCCC--CCCcEEEE
Q 015918          119 ADLRKELLSTLLNDGNMNKF-PNIGLNFQSKRL--TRKKVLIVFDDVNHPRQ----IEFL---IGNLDWF--ASGSRILI  186 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~-~~~~~~~l~~~l--~~~~~LlvlDd~~~~~~----~~~l---~~~l~~~--~~~~~ili  186 (398)
                      ..++..++..+......... .......+...+  .+++.+|+||+++....    .+.+   .......  ..+..+|+
T Consensus        93 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~  172 (387)
T 2v1u_A           93 YRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVG  172 (387)
T ss_dssp             HHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEE
Confidence            77777888777443221111 111234444444  35689999999975432    1222   2222111  34566777


Q ss_pred             EeCChhHHH-----hcCCC--eeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcC---CChHHHHHHHHHh
Q 015918          187 TARDKQALI-----NCGVN--KIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQ---GVPIALKILGRFL  256 (398)
Q Consensus       187 TsR~~~~~~-----~~~~~--~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~---g~Pl~i~~l~~~l  256 (398)
                      +|+..+...     ..+..  ..+.+++++.++..+++...+...........+..+.+++.++   |+|..+..++...
T Consensus       173 ~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a  252 (387)
T 2v1u_A          173 ITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVA  252 (387)
T ss_dssp             ECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             EECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            776552211     11122  5789999999999999987752100111122345778888888   9996555444333


Q ss_pred             cc---------CCHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhc-CcC--CcChHHHHHH----HHhc
Q 015918          257 FR---------KRKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIAC-FLV--GEDRDIVTKY----LNAC  320 (398)
Q Consensus       257 ~~---------~~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~-~~~--~~~~~~l~~~----~~~~  320 (398)
                      ..         -....+..+....       ....+...+..|++..+.++..++. +..  .+....+.+.    +...
T Consensus       253 ~~~a~~~~~~~i~~~~v~~a~~~~-------~~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (387)
T 2v1u_A          253 GEIAERRREERVRREHVYSARAEI-------ERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTL  325 (387)
T ss_dssp             HHHHHHTTCSCBCHHHHHHHHHHH-------HHHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCcCHHHHHHHHHHH-------hhchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhc
Confidence            11         1234444443332       1234566788999999988877774 321  2434422222    2111


Q ss_pred             C------ccccccHHHHhhccCeeec
Q 015918          321 E------FFATSGIEVLVDKSLITIS  340 (398)
Q Consensus       321 ~------~~~~~~l~~L~~~~Ll~~~  340 (398)
                      +      .....+++.|...|+++..
T Consensus       326 ~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          326 GLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             TCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            1      1234678999999999964

>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=99.56  E-value=1.8e-13  Score=120.76  Aligned_cols=198  Identities=15%  Similarity=0.070  Sum_probs=120.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      ....|+||+.+++.+..++....  ..+.++|+|++|+|||||++.+++.+...+......+        ..... +..+
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~--------~~~~~-~~~~   89 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGR--IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPC--------GVCDN-CREI   89 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTC--CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCC--------SCSHH-HHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC--------cccHH-HHHH
Confidence            44579999999999999997532  3458899999999999999999988654432110000        00000 0000


Q ss_pred             HHHH----hcCCCCCCCCccchHHHHHh-----hCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChhHH
Q 015918          126 LSTL----LNDGNMNKFPNIGLNFQSKR-----LTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQAL  194 (398)
Q Consensus       126 ~~~l----~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~~~  194 (398)
                      ....    ................+...     ..+++.+|||||++.  ...+..+...+.....+..+|+||+.....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~  169 (250)
T 1njg_A           90 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  169 (250)
T ss_dssp             HTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGS
T ss_pred             hccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhC
Confidence            0000    00000000000001111111     134678999999964  445555655554445677888888665321


Q ss_pred             --HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          195 --INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       195 --~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                        ........+.+++++.++..+++...+.....  ....+....+++.++|+|..+..++..+
T Consensus       170 ~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          170 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI--AHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC--CBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence              12234578999999999999999877633221  2335668899999999999998877654

>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=99.51  E-value=9e-13  Score=114.64  Aligned_cols=189  Identities=14%  Similarity=0.048  Sum_probs=117.2

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-..++||+..++.+.+++...   ..+.++|+|++|+|||++++.+++.+........++...  .........+. .
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~-~   87 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERK---NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN--ASDERGIDVVR-H   87 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT---CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE--TTCTTCHHHHH-H
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCC---CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEec--cccccChHHHH-H
Confidence            34467999999999999999763   333489999999999999999998864433222222211  11112222221 2


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChhH--HHhcCCC
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQA--LINCGVN  200 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~~--~~~~~~~  200 (398)
                      ....+.....              ....++.+|+|||++..  .....+...+.....++.+|+|++....  .......
T Consensus        88 ~~~~~~~~~~--------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~  153 (226)
T 2chg_A           88 KIKEFARTAP--------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRC  153 (226)
T ss_dssp             HHHHHHTSCC--------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHhcccC--------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhC
Confidence            2222211100              11356889999999743  3344444433333457778888876531  1122345


Q ss_pred             eeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHH
Q 015918          201 KIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRF  255 (398)
Q Consensus       201 ~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~  255 (398)
                      ..+.+++++.++..+++...+......  ...+....+++.++|+|..+..+...
T Consensus       154 ~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          154 AVFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ceeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            689999999999999998766321211  33466888999999999976554443

>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=99.41  E-value=8.8e-12  Score=115.02  Aligned_cols=185  Identities=17%  Similarity=0.184  Sum_probs=114.2

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc--ceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE--GSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-..|+||+..++.+.+++...   ..+.++|+|++|+|||++|+.+++.+.....  ..+++.    ....... +...
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~----~~~~~~~-~~i~   90 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDG---NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN----ASDDRGI-DVVR   90 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSC---CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC----TTSCCSH-HHHH
T ss_pred             CHHHHHCCHHHHHHHHHHHHcC---CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEec----CccccCh-HHHH
Confidence            3467999999999999999763   3334899999999999999999988643321  122322    1111122 2222


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChhH--HHhcC
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQA--LINCG  198 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~~--~~~~~  198 (398)
                      ++...+.....              .+ .+++.+|||||++..  .....+...+.....++.+|++|.....  ....+
T Consensus        91 ~~~~~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~s  156 (323)
T 1sxj_B           91 NQIKHFAQKKL--------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  156 (323)
T ss_dssp             THHHHHHHBCC--------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             HHHHHHHhccc--------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHh
Confidence            22222221100              01 345889999999742  3333333333223456777877765421  11224


Q ss_pred             CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH-HHHHHH
Q 015918          199 VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA-LKILGR  254 (398)
Q Consensus       199 ~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~-i~~l~~  254 (398)
                      ....+.+++++.++..+++...+.....  ....+....+++.++|+|.. +..+..
T Consensus       157 r~~~i~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          157 QCAILRYSKLSDEDVLKRLLQIIKLEDV--KYTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTC--CBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hceEEeecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            5678999999999999999876532111  12346688999999999965 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=99.35  E-value=5.3e-11  Score=109.91  Aligned_cols=219  Identities=16%  Similarity=0.112  Sum_probs=128.1

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcc--eEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEG--SYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-..++|++..++.+..++...   ..+.++|+|++|+|||++|+.+++.+......  .+.+.    .+..... +...
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~----~~~~~~~-~~~~   94 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTG---SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN----ASDERGI-NVIR   94 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHT---CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE----TTCHHHH-HTTH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcC---CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEee----ccccCch-HHHH
Confidence            3467999999999999999763   33458999999999999999999886433211  22222    1100000 0111


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChhH-H-HhcCC
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQA-L-INCGV  199 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~~-~-~~~~~  199 (398)
                      .....+.....              ...+++.+++|||++..  .....+...+......+.+|+|+..... . ...+.
T Consensus        95 ~~~~~~~~~~~--------------~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  160 (327)
T 1iqp_A           95 EKVKEFARTKP--------------IGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  160 (327)
T ss_dssp             HHHHHHHHSCC--------------GGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHhhCC--------------cCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh
Confidence            11111111000              11256789999999743  3344444443333456778888765421 1 11124


Q ss_pred             CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc-CCHHHHHHHHHHhccCChhh
Q 015918          200 NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR-KRKEVWENAISKLEMVPQME  278 (398)
Q Consensus       200 ~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~-~~~~~~~~~~~~l~~~~~~~  278 (398)
                      ...+.+++++.++..+++...+.....  ....+....+++.++|+|..+..+...+.. ....................
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~  238 (327)
T 1iqp_A          161 CAIFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPED  238 (327)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSEECHHHHHHHTTCCCHHH
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHCCCCHHH
Confidence            467899999999999999877633221  234577889999999999976655544432 21111222333333344455


Q ss_pred             HHHHHHHhHh
Q 015918          279 IQEVLKISYD  288 (398)
Q Consensus       279 v~~~l~~~~~  288 (398)
                      ++.++...+.
T Consensus       239 i~~l~~~~~~  248 (327)
T 1iqp_A          239 IREMMLLALK  248 (327)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            6555555444

>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=99.30  E-value=1.8e-10  Score=105.96  Aligned_cols=186  Identities=13%  Similarity=0.032  Sum_probs=115.0

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-c-ceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-E-GSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~-~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-..++|++..++.+.+++...   ..+.++++||+|+|||++|+.+++.+.... . ..+.+... .........+...
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~   90 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVERK---NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS-DERGIDVVRHKIK   90 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTTTT---CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETT-STTCTTTSSHHHH
T ss_pred             CHHHHhCCHHHHHHHHHHHhCC---CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCc-cccChHHHHHHHH
Confidence            3456999999999999998763   333489999999999999999998863321 1 11222210 0000001111111


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChh-H-HHhcCC
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQ-A-LINCGV  199 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~-~-~~~~~~  199 (398)
                      ...    ...              ....+++.++|||+++..  .....+...+......+.+|+++.... . ....+.
T Consensus        91 ~~~----~~~--------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  152 (319)
T 2chq_A           91 EFA----RTA--------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (319)
T ss_dssp             HHH----HSC--------------CSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTT
T ss_pred             HHH----hcC--------------CCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhh
Confidence            100    000              001256789999999743  334555555554456677777776543 1 112245


Q ss_pred             CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHH
Q 015918          200 NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRF  255 (398)
Q Consensus       200 ~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~  255 (398)
                      ...+.+.+++.++..+++...+.....  ....+....+++.++|++..+......
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~l~~l~~~~~G~~r~~~~~l~~  206 (319)
T 2chq_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGV--KITEDGLEALIYISGGDFRKAINALQG  206 (319)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHHHTTCC--CBCHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             CeEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            678999999999999999877643222  234567888999999999876554443

>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=99.29  E-value=3.5e-10  Score=104.34  Aligned_cols=258  Identities=14%  Similarity=0.092  Sum_probs=150.0

Q ss_pred             cccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-..|+|++..++.+..++....  ......++|+|++|+|||++|+.+++.....   ..++.    ........++.
T Consensus         9 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~---~~~~~----~~~~~~~~~l~   81 (324)
T 1hqc_A            9 KTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN---LRVTS----GPAIEKPGDLA   81 (324)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCC---EEEEC----TTTCCSHHHHH
T ss_pred             ccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCC---EEEEe----ccccCChHHHH
Confidence            345679999999999988875211  0234678899999999999999999886433   23333    11111111111


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--hHHHHHccCCCC------------------CCCc
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--QIEFLIGNLDWF------------------ASGS  182 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~------------------~~~~  182 (398)
                          ..+..                 . ...+.+|+||+++...  ....+...+...                  .+..
T Consensus        82 ----~~l~~-----------------~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~  139 (324)
T 1hqc_A           82 ----AILAN-----------------S-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRF  139 (324)
T ss_dssp             ----HHHTT-----------------T-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCC
T ss_pred             ----HHHHH-----------------h-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCE
Confidence                11110                 0 1345699999997532  223332211100                  1235


Q ss_pred             EEEEEeCChh-HHHh-cCC-CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccC
Q 015918          183 RILITARDKQ-ALIN-CGV-NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRK  259 (398)
Q Consensus       183 ~iliTsR~~~-~~~~-~~~-~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~  259 (398)
                      .+|.+|.... .... ... ...+.+++++.++..+++...+.....  ....+....+++.+.|+|..+..+...+...
T Consensus       140 ~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          140 TLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV--RITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             EEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            5666665432 1111 122 357899999999999999887633222  2335778999999999999988777665431


Q ss_pred             C---------HHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhh-cCc-CCcChHHHHHHHHhcCccccccH
Q 015918          260 R---------KEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIA-CFL-VGEDRDIVTKYLNACEFFATSGI  328 (398)
Q Consensus       260 ~---------~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la-~~~-~~~~~~~l~~~~~~~~~~~~~~l  328 (398)
                      .         ...+......            +......+++.++..+..+. .+. .+++...+...++.+.......+
T Consensus       218 a~~~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l  285 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAA------------LGLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVH  285 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHT
T ss_pred             HHHhcCCCCCHHHHHHHHHH------------hcccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHH
Confidence            1         1122221111            11223456666767765544 333 33677777777765444334434


Q ss_pred             HH-HhhccCeeeccCCce
Q 015918          329 EV-LVDKSLITISEYNKI  345 (398)
Q Consensus       329 ~~-L~~~~Ll~~~~~~~~  345 (398)
                      +. +++.+++.....|+.
T Consensus       286 ~~~~i~~~li~~~~~g~~  303 (324)
T 1hqc_A          286 EPYLIRQGLLKRTPRGRV  303 (324)
T ss_dssp             HHHHHHTTSEEEETTEEE
T ss_pred             hHHHHHhcchhcCCccce
Confidence            44 888999987766643

>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=99.27  E-value=2.4e-10  Score=107.54  Aligned_cols=197  Identities=15%  Similarity=0.080  Sum_probs=116.6

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-..++||+.+++.+...+...  ...+.++|+|++|+||||+|+.+++.+....... ...       ..... .+..+
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~--~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~-~~~-------~~~~~-~~~~~   82 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLG--RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-ATP-------CGVCD-NCREI   82 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHT--CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC-SSC-------CSSSH-HHHHH
T ss_pred             chhhccCcHHHHHHHHHHHHhC--CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC-CCC-------CcccH-HHHHH
Confidence            3456999999999999998753  2345789999999999999999998864332110 000       00000 00111


Q ss_pred             HHH----HhcCCCCCCCCccchHHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChhH-
Q 015918          126 LST----LLNDGNMNKFPNIGLNFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQA-  193 (398)
Q Consensus       126 ~~~----l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~~-  193 (398)
                      ...    +................+...+     .+++.+|||||++.  ......+...+........+|++|..... 
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l  162 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  162 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGS
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhC
Confidence            100    0000000000011222222222     34578999999974  34455555554443456667777764421 


Q ss_pred             -HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHH
Q 015918          194 -LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRF  255 (398)
Q Consensus       194 -~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~  255 (398)
                       ....+....+.+.+++.++..+++...+.....  ....+....+++.++|+|..+..+...
T Consensus       163 ~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~--~~~~~a~~~l~~~~~G~~r~~~~~l~~  223 (373)
T 1jr3_A          163 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI--AHEPRALQLLARAAEGSLRDALSLTDQ  223 (373)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC--CBCHHHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             cHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence             122245678999999999999999876522111  223466888999999999988766543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.20  E-value=1.9e-09  Score=100.10  Aligned_cols=258  Identities=13%  Similarity=0.099  Sum_probs=151.2

Q ss_pred             ccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-..|+|++..++.+..++....  ....+.++|+|++|+|||+||+.+++.....|   +.+.    .........+ .
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~---~~~~----~~~~~~~~~~-~   98 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI---KTTA----APMIEKSGDL-A   98 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE---EEEE----GGGCCSHHHH-H
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEec----chhccchhHH-H
Confidence            45679999999999999886421  13456789999999999999999988864442   2222    1111111111 1


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCC------------------CCCcE
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWF------------------ASGSR  183 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~------------------~~~~~  183 (398)
                      ..+                    ..  ...+.+|+||+++..  .....+...+...                  .+...
T Consensus        99 ~~~--------------------~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (338)
T 3pfi_A           99 AIL--------------------TN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFT  156 (338)
T ss_dssp             HHH--------------------HT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCE
T ss_pred             HHH--------------------Hh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeE
Confidence            111                    00  235679999999743  2233332222110                  11245


Q ss_pred             EEEEeCChh-HHH-hc-CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhcc--
Q 015918          184 ILITARDKQ-ALI-NC-GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFR--  258 (398)
Q Consensus       184 iliTsR~~~-~~~-~~-~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~--  258 (398)
                      +|.+|.... ..+ .. .....+.+++++.++..+++...+....  .....+....+++.+.|+|..+..+...+..  
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~--~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a  234 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN--KTCEEKAALEIAKRSRSTPRIALRLLKRVRDFA  234 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CEECHHHHHHHHHTTTTCHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            665554432 111 11 2337899999999999999987763222  2234577888999999999877665544311  


Q ss_pred             ----C---CHHHHHHHHHHhccCChhhHHHHHHHhHhcCchHHHHHHHHhhcCcCC-cChHHHHHHHHhcCccccccHH-
Q 015918          259 ----K---RKEVWENAISKLEMVPQMEIQEVLKISYDGLDDKEKNIFLDIACFLVG-EDRDIVTKYLNACEFFATSGIE-  329 (398)
Q Consensus       259 ----~---~~~~~~~~~~~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~la~~~~~-~~~~~l~~~~~~~~~~~~~~l~-  329 (398)
                          .   ...........            +......+....+.++..++..... ++...+...++.+.......++ 
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                0   11111111111            1122233555556666666555332 6777887777665555555666 


Q ss_pred             HHhhccCeeeccCCceEe
Q 015918          330 VLVDKSLITISEYNKIRM  347 (398)
Q Consensus       330 ~L~~~~Ll~~~~~~~~~~  347 (398)
                      .|++.|++.....|+...
T Consensus       303 ~l~~~gli~~~~~g~~~t  320 (338)
T 3pfi_A          303 YLLANGYIERTAKGRIAS  320 (338)
T ss_dssp             HHHHTTSEEEETTEEEEC
T ss_pred             HHHHcCceecCCCccccc
Confidence            899999999887776543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.16  E-value=1.1e-10  Score=106.33  Aligned_cols=173  Identities=10%  Similarity=0.029  Sum_probs=102.4

Q ss_pred             cccCcccccchhHHHHHHHhccCC-CCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----c--ceEEEeechhhhhcC
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGL-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----E--GSYFAHNVREAEETG  116 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~--~~~~~~~~~~~~~~~  116 (398)
                      .+...+.||++|++.|...|...- .+..+.+.|+|++|+|||++++.+++.+....     +  ..++++    .....
T Consensus        17 ~~~~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~IN----c~~~~   92 (318)
T 3te6_A           17 QKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID----ALELA   92 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEE----TTCCC
T ss_pred             CCccccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEe----ccccC
Confidence            444558999999999998876321 15677899999999999999999999975432     1  234444    33445


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh---CCceEEEEEeCCCChHhHHHHHccCC---CCCCCcEEEEEeCC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL---TRKKVLIVFDDVNHPRQIEFLIGNLD---WFASGSRILITARD  190 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l---~~~~~LlvlDd~~~~~~~~~l~~~l~---~~~~~~~iliTsR~  190 (398)
                      +...++..+..++................+...+   .+++++++||+++....-+.+...+.   .......+|.++..
T Consensus        93 t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~  172 (318)
T 3te6_A           93 GMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGH  172 (318)
T ss_dssp             --HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCS
T ss_pred             CHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecC
Confidence            6677777888887544221111111222222222   45789999999975432122221111   11122334444433


Q ss_pred             hhH-HHhc------C-CCeeEEcCCCChhhhHHHHHHhh
Q 015918          191 KQA-LINC------G-VNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       191 ~~~-~~~~------~-~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      .+. ...+      + ....+.++|++.+|..+++..++
T Consensus       173 ~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          173 NVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             SCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             cccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence            211 1111      1 22579999999999999998876

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.12  E-value=2.3e-10  Score=96.75  Aligned_cols=50  Identities=26%  Similarity=0.351  Sum_probs=42.9

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .-..|+||+.+++.+.+.+..   ...+.++|+|++|+|||+|++.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQR---RTKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS---SSSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhc---CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            446799999999999999876   34567899999999999999999988644

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.10  E-value=5.7e-09  Score=97.34  Aligned_cols=196  Identities=11%  Similarity=0.063  Sum_probs=113.6

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc--Cc-ceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR--FE-GSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~--f~-~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..-..++|++..++.+..++...   ..+.++|+|++|+||||+|+.+++.+...  +. ....+.    .+...... .
T Consensus        34 ~~~~~i~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~----~~~~~~~~-~  105 (353)
T 1sxj_D           34 KNLDEVTAQDHAVTVLKKTLKSA---NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN----ASDERGIS-I  105 (353)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCT---TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC----SSSCCCHH-H
T ss_pred             CCHHHhhCCHHHHHHHHHHHhcC---CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEc----cccccchH-H
Confidence            34567999999999999999763   22348999999999999999999886421  21 122222    11111222 2


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChh-HHH-hc
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQ-ALI-NC  197 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~-~~~-~~  197 (398)
                      +.+....+...... ..   ........-...+.+|+||+++..  .....+...+.......++|+++.... ..+ ..
T Consensus       106 ~~~~~~~~~~~~~~-~~---~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~  181 (353)
T 1sxj_D          106 VREKVKNFARLTVS-KP---SKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLA  181 (353)
T ss_dssp             HTTHHHHHHHSCCC-CC---CTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhhccc-cc---chhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhh
Confidence            22222222211110 00   000111111235579999999643  333444433332244566777665442 111 11


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      +....+.+.+++.++..+.+...+.....  ...++....+++.++|+|..+..+..
T Consensus       182 sR~~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~l~~l~~~~~G~~r~~~~~l~  236 (353)
T 1sxj_D          182 SQCSKFRFKALDASNAIDRLRFISEQENV--KCDDGVLERILDISAGDLRRGITLLQ  236 (353)
T ss_dssp             HHSEEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHTSSCHHHHHHHHH
T ss_pred             ccCceEEeCCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            23468899999999999999887633222  23357789999999999987554443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.06  E-value=3.7e-09  Score=99.29  Aligned_cols=204  Identities=11%  Similarity=-0.010  Sum_probs=111.7

Q ss_pred             cCcccccchhHHHHH---HHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           47 ENKLVGVDSRIEEIL---SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        47 ~~~fvGR~~el~~l~---~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      -..|+|++...+.+.   +.+.... ...+.++|+||+|+|||++|+.+++.+....+... +.+..-.+........+.
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~-~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~  120 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGK-IAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTA-IAGSEIFSLEMSKTEALT  120 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTC-CTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEE-EEGGGGSCSSSCHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCC-CCCCEEEEECCCCCCHHHHHHHHHHHhcccCCccc-ccchhhhhcccchhHHHH
Confidence            457999999977754   4444433 33468999999999999999999999865433222 221111111222223333


Q ss_pred             HHHHHHhcC--------------------C------CCCC----CCccchHHHHHhh-----CCc----eEEEEEeCCCC
Q 015918          124 ELLSTLLND--------------------G------NMNK----FPNIGLNFQSKRL-----TRK----KVLIVFDDVNH  164 (398)
Q Consensus       124 ~i~~~l~~~--------------------~------~~~~----~~~~~~~~l~~~l-----~~~----~~LlvlDd~~~  164 (398)
                      ..+......                    .      ....    ........+....     .++    +.+|+||+++.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~  200 (368)
T 3uk6_A          121 QAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHM  200 (368)
T ss_dssp             HHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGG
T ss_pred             HHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhccc
Confidence            332221100                    0      0000    0111111111111     122    56999999974


Q ss_pred             h--HhHHHHHccCCCCCCCcEEEEEeCC------------h-hH-HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCC
Q 015918          165 P--RQIEFLIGNLDWFASGSRILITARD------------K-QA-LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPD  228 (398)
Q Consensus       165 ~--~~~~~l~~~l~~~~~~~~iliTsR~------------~-~~-~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~  228 (398)
                      .  .....+...+....... +++++..            . .+ ....+....+.+++++.++..+++...+....  .
T Consensus       201 l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~--~  277 (368)
T 3uk6_A          201 LDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEED--V  277 (368)
T ss_dssp             SBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTT--C
T ss_pred             cChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcC--C
Confidence            3  34445554444323333 4434321            1 01 12223456689999999999999987763322  2


Q ss_pred             cchHHHHHHHHHHcC-CChHHHHHHHHH
Q 015918          229 ASYIELTHEAIKYAQ-GVPIALKILGRF  255 (398)
Q Consensus       229 ~~~~~~~~~i~~~~~-g~Pl~i~~l~~~  255 (398)
                      ....+....+++.+. |+|..+..+...
T Consensus       278 ~~~~~~l~~l~~~~~~G~~r~~~~ll~~  305 (368)
T 3uk6_A          278 EMSEDAYTVLTRIGLETSLRYAIQLITA  305 (368)
T ss_dssp             CBCHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            234577889999998 999877666554

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.06  E-value=8.5e-10  Score=96.99  Aligned_cols=176  Identities=14%  Similarity=0.051  Sum_probs=104.4

Q ss_pred             cCcccccc---hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           47 ENKLVGVD---SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        47 ~~~fvGR~---~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      -+.|+|+.   ..++.+..++..   +..+.++|+|++|+||||||+.+++........+.|+... ....  ..     
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~-~~~~--~~-----   95 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASG---DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLG-IHAS--IS-----   95 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHT---CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGG-GGGG--SC-----
T ss_pred             hhhccCCCCCHHHHHHHHHHHhC---CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH-HHHH--HH-----
Confidence            35688743   556666666654   3467899999999999999999999876554445565521 1000  00     


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--h--HHHHHccCCCC-C-CCcEEEEEeCChhH----
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--Q--IEFLIGNLDWF-A-SGSRILITARDKQA----  193 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~--~~~l~~~l~~~-~-~~~~iliTsR~~~~----  193 (398)
                                     .+    .+ ..+ .++.+|+|||++...  .  ...+...+... . ....+|+|++....    
T Consensus        96 ---------------~~----~~-~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~  154 (242)
T 3bos_A           96 ---------------TA----LL-EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGF  154 (242)
T ss_dssp             ---------------GG----GG-TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTC
T ss_pred             ---------------HH----HH-Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHH
Confidence                           00    00 011 345699999996432  1  22232221110 1 22247777764321    


Q ss_pred             --HHhc---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          194 --LINC---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       194 --~~~~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                        ....   .....+.+++++.++..+++...+.....  ....+....+++.+.|++..+..+...+
T Consensus       155 ~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~l~~~l~~~  220 (242)
T 3bos_A          155 VLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL--QLPEDVGRFLLNRMARDLRTLFDVLDRL  220 (242)
T ss_dssp             CCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC--CCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             hhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence              1111   12278999999999999999887632221  2335778899999999998776655433

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.03  E-value=1.1e-08  Score=100.33  Aligned_cols=193  Identities=12%  Similarity=0.073  Sum_probs=106.6

Q ss_pred             ccCcccccchhHHHHHHHhccCC--------------CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL--------------TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVRE  111 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~--------------~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~  111 (398)
                      .-..++|++..++.|.+++....              .+..+.++|+||+|+|||++|+.+++.+.  ++ .+.+.    
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~--~~-~i~in----  109 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--YD-ILEQN----  109 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--CE-EEEEC----
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC--CC-EEEEe----
Confidence            44679999999999999986410              01347899999999999999999998872  22 22332    


Q ss_pred             hhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHH-HHhhCCceEEEEEeCCCChH-----hHHHHHccCCCCCCCcEEE
Q 015918          112 AEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQ-SKRLTRKKVLIVFDDVNHPR-----QIEFLIGNLDWFASGSRIL  185 (398)
Q Consensus       112 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l-~~~l~~~~~LlvlDd~~~~~-----~~~~l~~~l~~~~~~~~il  185 (398)
                      .+.... .......+.......   .......... ......++.+|+||+++...     .+..+...+..  ....+|
T Consensus       110 ~s~~~~-~~~~~~~i~~~~~~~---~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iI  183 (516)
T 1sxj_A          110 ASDVRS-KTLLNAGVKNALDNM---SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLI  183 (516)
T ss_dssp             TTSCCC-HHHHHHTGGGGTTBC---CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEE
T ss_pred             CCCcch-HHHHHHHHHHHhccc---cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEE
Confidence            221112 122222211111111   0111000000 00123568899999996321     12223222211  223344


Q ss_pred             EEeCCh---hHHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHH
Q 015918          186 ITARDK---QALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILG  253 (398)
Q Consensus       186 iTsR~~---~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~  253 (398)
                      +++...   ...+.......+.+++++.++..+++...+......  ...+....+++.++|++..+..+.
T Consensus       184 li~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~--i~~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          184 LICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             EEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHTTTCHHHHHHHH
T ss_pred             EEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHH
Confidence            444322   223333456789999999999999987765321111  112457889999999776544443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.00  E-value=1e-08  Score=98.45  Aligned_cols=182  Identities=14%  Similarity=0.177  Sum_probs=110.8

Q ss_pred             cccCcccccchhH---HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRI---EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el---~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..-..++|.+..+   +.|...+..   +..+.++|+||+|+||||||+.+++.....|.   .+.    .. .....++
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~---~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~---~l~----a~-~~~~~~i   91 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEA---GHLHSMILWGPPGTGKTTLAEVIARYANADVE---RIS----AV-TSGVKEI   91 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHH---TCCCEEEEECSTTSSHHHHHHHHHHHTTCEEE---EEE----TT-TCCHHHH
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHc---CCCcEEEEECCCCCcHHHHHHHHHHHhCCCeE---EEE----ec-cCCHHHH
Confidence            3446799999998   778888876   34578999999999999999999988654421   111    10 1111111


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--hHHHHHccCCCCCCCcEEEEEe-CChh---HHH
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--QIEFLIGNLDWFASGSRILITA-RDKQ---ALI  195 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~~~~l~~~l~~~~~~~~iliTs-R~~~---~~~  195 (398)
                       ..++...                .......++.+|+||+++...  ..+.|+..+..  ....+|.+| .+..   ...
T Consensus        92 -r~~~~~a----------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           92 -REAIERA----------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSA  152 (447)
T ss_dssp             -HHHHHHH----------------HHHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHH
T ss_pred             -HHHHHHH----------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHH
Confidence             1111111                011124567899999997532  23333333321  334455444 3331   122


Q ss_pred             hcCCCeeEEcCCCChhhhHHHHHHhhcCCC-----CCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          196 NCGVNKIYQIKELVHVDALKLLNQCAFGRD-----HPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       196 ~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~-----~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ..+....+.+++++.++...++...+....     .......+..+.+++.++|++..+..+...+
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a  218 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMM  218 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            234567889999999999999988763311     2223456788999999999998776554443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.98  E-value=5.5e-09  Score=94.48  Aligned_cols=185  Identities=15%  Similarity=0.172  Sum_probs=105.6

Q ss_pred             cccCcccccchhHHHHHHHhccC-----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhh
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG-----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAE  113 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~-----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~  113 (398)
                      ..-..++|.+..++.|.+.+...           . ...+.++|+|++|+|||+||+.+++.+...+   +.+. .....
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~ll~G~~GtGKT~la~~la~~~~~~~---~~v~-~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGI-EPPKGILLYGPPGTGKTLLAKAVATETNATF---IRVV-GSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCC-CCCSEEEEESSSSSSHHHHHHHHHHHTTCEE---EEEE-GGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCC-CCCCeEEEECCCCCcHHHHHHHHHHHhCCCE---EEEe-hHHHH
Confidence            34567999999999998887431           1 3456799999999999999999998864432   2222 11110


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------------HhHHHHHccCC-
Q 015918          114 ETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------------RQIEFLIGNLD-  176 (398)
Q Consensus       114 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------------~~~~~l~~~l~-  176 (398)
                      .. .....                 .......+.......+.+|+||+++..                ..+..++..+. 
T Consensus        89 ~~-~~~~~-----------------~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~  150 (285)
T 3h4m_A           89 KK-FIGEG-----------------ASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDG  150 (285)
T ss_dssp             CC-STTHH-----------------HHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHT
T ss_pred             Hh-ccchH-----------------HHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhC
Confidence            00 00000                 000111222223456789999999543                11222222211 


Q ss_pred             -CCCCCcEEEEEeCChhHHH---hc--CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHH
Q 015918          177 -WFASGSRILITARDKQALI---NC--GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIAL  249 (398)
Q Consensus       177 -~~~~~~~iliTsR~~~~~~---~~--~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i  249 (398)
                       ....+..+|.||..+....   ..  .....+.+++.+.++..+++...+........   .....+++.+.| .|..+
T Consensus       151 ~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~i  227 (285)
T 3h4m_A          151 FDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAEL  227 (285)
T ss_dssp             TCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHHH
T ss_pred             CCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHHH
Confidence             1134566777776542211   11  22347889999999999999887633222111   115677888877 56666


Q ss_pred             HHHHHH
Q 015918          250 KILGRF  255 (398)
Q Consensus       250 ~~l~~~  255 (398)
                      ..++..
T Consensus       228 ~~l~~~  233 (285)
T 3h4m_A          228 KAICTE  233 (285)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665543

>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=98.94  E-value=4.6e-08  Score=90.03  Aligned_cols=183  Identities=13%  Similarity=0.050  Sum_probs=106.5

Q ss_pred             cCcccccchhHHHHHHHhc----------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc-
Q 015918           47 ENKLVGVDSRIEEILSLLG----------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET-  115 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~----------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-  115 (398)
                      -..++|.+...+.|...+.          ... ...+.++|+||+|+|||+||+.+++.....|   +.+. ....... 
T Consensus        17 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~---~~v~-~~~l~~~~   91 (322)
T 3eie_A           17 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNR-KPTSGILLYGPPGTGKSYLAKAVATEANSTF---FSVS-SSDLVSKW   91 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTC-CCCCEEEEECSSSSCHHHHHHHHHHHHTCEE---EEEE-HHHHHTTT
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhCHHHHhcCC-CCCCeEEEECCCCCcHHHHHHHHHHHHCCCE---EEEc-hHHHhhcc
Confidence            3568999999999988772          111 3456799999999999999999998864432   2222 1110000 


Q ss_pred             -CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccC---CCC
Q 015918          116 -GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNL---DWF  178 (398)
Q Consensus       116 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l---~~~  178 (398)
                       ......                    ....+.......+.+|+||+++...             ....++..+   ...
T Consensus        92 ~g~~~~~--------------------~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  151 (322)
T 3eie_A           92 MGESEKL--------------------VKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  151 (322)
T ss_dssp             GGGHHHH--------------------HHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS
T ss_pred             cchHHHH--------------------HHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc
Confidence             000111                    1111222223567899999996321             122222222   122


Q ss_pred             CCCcEEEEEeCChhHHH---hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHHH
Q 015918          179 ASGSRILITARDKQALI---NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILGR  254 (398)
Q Consensus       179 ~~~~~iliTsR~~~~~~---~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~~  254 (398)
                      ..+..||.||..+....   .......+.++..+.++-.+++..++.....  .........+++.+.| .+-.|..+++
T Consensus       152 ~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~--~~~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          152 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPC--VLTKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             CCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCC--CCCHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             CCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCC--CCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34556666665542111   1124467888999999999999887733221  2234567888899887 5666666655


Q ss_pred             Hh
Q 015918          255 FL  256 (398)
Q Consensus       255 ~l  256 (398)
                      ..
T Consensus       230 ~a  231 (322)
T 3eie_A          230 DA  231 (322)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.92  E-value=1.3e-08  Score=94.92  Aligned_cols=200  Identities=10%  Similarity=0.032  Sum_probs=109.1

Q ss_pred             ccCcccccchhHHHHHHHh-ccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEee----------------
Q 015918           46 TENKLVGVDSRIEEILSLL-GVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHN----------------  108 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L-~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~----------------  108 (398)
                      .-..++|++..++.+.+++ ...  .... ++|+||+|+||||+++.+++.+.......+++..                
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~~~~--~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSDQPR--DLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTT--CCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CHHHhcCCHHHHHHHHHHHhhCC--CCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            3467999999999999988 542  2233 8999999999999999999864322111111100                


Q ss_pred             -------chhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCC
Q 015918          109 -------VREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFA  179 (398)
Q Consensus       109 -------~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~  179 (398)
                             ...............+.+..+......   ....  .+ .-+..++-++|||+++..  .....+...+....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---~~~~--~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV---DFQD--SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccc---cccc--cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence                   000000000000122222222111100   0000  00 002336779999999753  23334443333223


Q ss_pred             CCcEEEEEeCChh-H-HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcch-HHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          180 SGSRILITARDKQ-A-LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASY-IELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       180 ~~~~iliTsR~~~-~-~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~-~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      .+..+|++|.... + ....+....+.+++++.++..+.+...+.....  ... ++.+..+++.++|++..+..+...+
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~l~~i~~~~~G~~r~a~~~l~~~  240 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI--QLETKDILKRIAQASNGNLRVSLLMLESM  240 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC--EECCSHHHHHHHHHHTTCHHHHHHHHTHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC--CCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            4667777775532 2 222345688999999999999999876532111  122 3568889999999998776555433

>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=98.92  E-value=1.1e-08  Score=98.11  Aligned_cols=186  Identities=13%  Similarity=0.090  Sum_probs=107.7

Q ss_pred             Cccc-ccchhH--HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcc--eEEEeechhhhhcCCHHHHH
Q 015918           48 NKLV-GVDSRI--EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEG--SYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        48 ~~fv-GR~~el--~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..|+ |....+  ..+........ . ...++|+|++|+||||||+.+++.+...++.  ++++.    .      ..+.
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~-~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~----~------~~~~  172 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPG-R-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----S------EKFL  172 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTT-S-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE----H------HHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCC-C-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----H------HHHH
Confidence            3455 765544  33344443322 2 6789999999999999999999987665432  34443    1      1122


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----HhHHHHHccCCC-CCCCcEEEEEeCChh-----
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----RQIEFLIGNLDW-FASGSRILITARDKQ-----  192 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----~~~~~l~~~l~~-~~~~~~iliTsR~~~-----  192 (398)
                      .++...+...         ....+...+...+.+|+|||++..    ...+.+...+.. ...+..+|+||..+.     
T Consensus       173 ~~~~~~~~~~---------~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~  243 (440)
T 2z4s_A          173 NDLVDSMKEG---------KLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSE  243 (440)
T ss_dssp             HHHHHHHHTT---------CHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSS
T ss_pred             HHHHHHHHcc---------cHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHH
Confidence            2333333211         122333334436779999999632    223333333211 134667888886532     


Q ss_pred             ----HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHh
Q 015918          193 ----ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       193 ----~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                          +...+.....+.+++++.++..+++...+......  ...+....+++.+.|++.-+..+...+
T Consensus       244 l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~--i~~e~l~~la~~~~gn~R~l~~~L~~~  309 (440)
T 2z4s_A          244 FQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLRGAIIKL  309 (440)
T ss_dssp             CCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHCCSCHHHHHHHHHHH
T ss_pred             HHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence                11112233678899999999999998776321111  122557889999999998776554433

>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=98.92  E-value=2.1e-08  Score=92.43  Aligned_cols=183  Identities=14%  Similarity=0.109  Sum_probs=107.7

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKEL  125 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i  125 (398)
                      .-.+++|++..++.+.+++...  ...+.++++||+|+|||++|+.+++.+...   .+.+.    .+. .. .+.+...
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~--~~~~~~L~~G~~G~GKT~la~~la~~l~~~---~~~i~----~~~-~~-~~~i~~~   92 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKG--KIPHIILHSPSPGTGKTTVAKALCHDVNAD---MMFVN----GSD-CK-IDFVRGP   92 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTT--CCCSEEEECSSTTSSHHHHHHHHHHHTTEE---EEEEE----TTT-CC-HHHHHTH
T ss_pred             CHHHHhCcHHHHHHHHHHHHcC--CCCeEEEeeCcCCCCHHHHHHHHHHHhCCC---EEEEc----ccc-cC-HHHHHHH
Confidence            4467999999999999999853  344678889999999999999999887422   23333    111 11 2222222


Q ss_pred             HHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH---hHHHHHccCCCCCCCcEEEEEeCChhHH--HhcCCC
Q 015918          126 LSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR---QIEFLIGNLDWFASGSRILITARDKQAL--INCGVN  200 (398)
Q Consensus       126 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~---~~~~l~~~l~~~~~~~~iliTsR~~~~~--~~~~~~  200 (398)
                      +........               ..+++.+|+|||++...   ....+...+......+.+|+|+......  ...+..
T Consensus        93 ~~~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~  157 (324)
T 3u61_B           93 LTNFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRC  157 (324)
T ss_dssp             HHHHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHS
T ss_pred             HHHHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhC
Confidence            222211111               12467899999998654   3344433332223456777777654311  111234


Q ss_pred             eeEEcCCCChhhhHHHH-------HHhhcCCCCCCcchH-HHHHHHHHHcCCChHHHHHHHHHh
Q 015918          201 KIYQIKELVHVDALKLL-------NQCAFGRDHPDASYI-ELTHEAIKYAQGVPIALKILGRFL  256 (398)
Q Consensus       201 ~~~~l~~L~~~e~~~Ll-------~~~~~~~~~~~~~~~-~~~~~i~~~~~g~Pl~i~~l~~~l  256 (398)
                      ..+.+++++.++-.+++       ...+.....  ...+ +....+++.++|++..+......+
T Consensus       158 ~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~--~~~~~~~~~~l~~~~~gd~R~a~~~L~~~  219 (324)
T 3u61_B          158 RVITFGQPTDEDKIEMMKQMIRRLTEICKHEGI--AIADMKVVAALVKKNFPDFRKTIGELDSY  219 (324)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTC--CBSCHHHHHHHHHHTCSCTTHHHHHHHHH
T ss_pred             cEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCC--CCCcHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            67999999988743332       222211111  1122 668889999999888655444333

>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=98.91  E-value=1.1e-07  Score=88.74  Aligned_cols=186  Identities=13%  Similarity=0.070  Sum_probs=105.8

Q ss_pred             ccCcccccchhHHHHHHHhcc---------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           46 TENKLVGVDSRIEEILSLLGV---------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~---------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      .-..++|.+...+.|.+.+..         ......+.++|+||+|+|||+||+.+++.+...|   +.+.    ..   
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~---~~v~----~~---  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF---FSVS----SS---  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEE---EEEE----HH---
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE---EEee----HH---
Confidence            345699999999999987631         1113345689999999999999999999874331   2222    10   


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccC---CCCCC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNL---DWFAS  180 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l---~~~~~  180 (398)
                         ++        ...... .........+.......+.+|+||+++...             ....++..+   .....
T Consensus       119 ---~l--------~~~~~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 ---DL--------VSKWMG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             ---HH--------HSCC----CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             ---HH--------hhhhcc-hHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence               11        000000 001111111222223578899999996432             122232222   11234


Q ss_pred             CcEEEEEeCChhH---HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHHHH
Q 015918          181 GSRILITARDKQA---LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILGRF  255 (398)
Q Consensus       181 ~~~iliTsR~~~~---~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~~~  255 (398)
                      +..||.||..+..   .........+.+++.+.++-.+++..++.....  .........+++.+.| .+..|..+++.
T Consensus       187 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~--~~~~~~l~~la~~t~G~sg~dl~~l~~~  263 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPS--VLTKEDYRTLGAMTEGYSGSDIAVVVKD  263 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCB--CCCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            5556666654421   111134467889999999999999877633221  1224557889999987 56667666654

>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=98.91  E-value=9.3e-08  Score=85.75  Aligned_cols=171  Identities=12%  Similarity=0.014  Sum_probs=95.5

Q ss_pred             cCcccccchhHHHHHHH-------hccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHH
Q 015918           47 ENKLVGVDSRIEEILSL-------LGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~-------L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  119 (398)
                      ...++|+...++.+...       +........+.++|+|++|+|||+||+.+++.....  .+.+.+ ..... .....
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~--~~~i~~-~~~~~-g~~~~  107 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP--FIKICS-PDKMI-GFSET  107 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS--EEEEEC-GGGCT-TCCHH
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC--EEEEeC-HHHhc-CCchH
Confidence            45689998887777763       222111567889999999999999999999885332  222221 10000 00000


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh------------HhHHHHHccCCC---CCCCcEE
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP------------RQIEFLIGNLDW---FASGSRI  184 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~------------~~~~~l~~~l~~---~~~~~~i  184 (398)
                      .....                 ....+.......+.+|+||+++..            ..+..+...+..   ......|
T Consensus       108 ~~~~~-----------------~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          108 AKCQA-----------------MKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             HHHHH-----------------HHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             HHHHH-----------------HHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence            00000                 111222223456889999998542            123333333322   2234456


Q ss_pred             EEEeCChhHHHh---c-CCCeeEEcCCCCh-hhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC
Q 015918          185 LITARDKQALIN---C-GVNKIYQIKELVH-VDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV  245 (398)
Q Consensus       185 liTsR~~~~~~~---~-~~~~~~~l~~L~~-~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~  245 (398)
                      |.||..+.....   . .....+.+++++. ++...++....   .    ...+....+++.+.|.
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~---~----~~~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG---N----FKDKERTTIAQQVKGK  229 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT---C----SCHHHHHHHHHHHTTS
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC---C----CCHHHHHHHHHHhcCC
Confidence            667766643332   1 2356789999988 66666665432   1    1235578888888873

>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=98.90  E-value=6.9e-08  Score=89.31  Aligned_cols=181  Identities=13%  Similarity=0.102  Sum_probs=102.2

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHH----H
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLST----L  129 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~----l  129 (398)
                      +...+.+...+..+  .-.+.++++|++|+|||++|+.+++.+....... ...       ..... .+..+...    +
T Consensus         8 ~~~~~~l~~~i~~~--~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~-~~~-------c~~c~-~c~~~~~~~~~d~   76 (334)
T 1a5t_A            8 RPDFEKLVASYQAG--RGHHALLIQALPGMGDDALIYALSRYLLCQQPQG-HKS-------CGHCR-GCQLMQAGTHPDY   76 (334)
T ss_dssp             HHHHHHHHHHHHTT--CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT-TBC-------CSCSH-HHHHHHHTCCTTE
T ss_pred             HHHHHHHHHHHHcC--CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCC-CCC-------CCCCH-HHHHHhcCCCCCE
Confidence            44556667766543  2356799999999999999999999865332110 000       00000 00010000    0


Q ss_pred             hcCCCCCCCCccc---hHHHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChh-HH-Hhc
Q 015918          130 LNDGNMNKFPNIG---LNFQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQ-AL-INC  197 (398)
Q Consensus       130 ~~~~~~~~~~~~~---~~~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~-~~-~~~  197 (398)
                      ..-..........   +..+...+     .+++-++|||+++.  ......++..+........+|++|.++. +. ...
T Consensus        77 ~~~~~~~~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~  156 (334)
T 1a5t_A           77 YTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (334)
T ss_dssp             EEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             EEEeccccCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHh
Confidence            0000000000111   11122222     24567999999974  3445556555554455667777766542 22 223


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      +.+..+.+++++.++..+.+....       ....+.+..+++.++|.|..+..+
T Consensus       157 SRc~~~~~~~~~~~~~~~~L~~~~-------~~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          157 SRCRLHYLAPPPEQYAVTWLSREV-------TMSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHC-------CCCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             hcceeeeCCCCCHHHHHHHHHHhc-------CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            466789999999999999998765       112355788999999999866443

>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=98.88  E-value=8.8e-08  Score=89.46  Aligned_cols=185  Identities=11%  Similarity=0.007  Sum_probs=106.6

Q ss_pred             cccCcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhh
Q 015918           45 ETENKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEE  114 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  114 (398)
                      ..-..++|.+..++.|.+.+..          .. ...+.++|+|++|+|||+||+.+++.....   .+.+.. .....
T Consensus        81 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~---~~~i~~-~~l~~  155 (357)
T 3d8b_A           81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGAT---FFSISA-SSLTS  155 (357)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCE---EEEEEG-GGGCC
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCe---EEEEeh-HHhhc
Confidence            3445799999999999988742          11 345789999999999999999999876332   222221 11100


Q ss_pred             cC--CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHccCC---
Q 015918          115 TG--KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIGNLD---  176 (398)
Q Consensus       115 ~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~~l~---  176 (398)
                      ..  .....                    ....+.......+.+|+||+++..             .....++..+.   
T Consensus       156 ~~~g~~~~~--------------------~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~  215 (357)
T 3d8b_A          156 KWVGEGEKM--------------------VRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGAT  215 (357)
T ss_dssp             SSTTHHHHH--------------------HHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC--
T ss_pred             cccchHHHH--------------------HHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccc
Confidence            00  00011                    111111222356789999999532             11222322221   


Q ss_pred             -CCCCCcEEEEEeCChh-H--HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHH
Q 015918          177 -WFASGSRILITARDKQ-A--LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKI  251 (398)
Q Consensus       177 -~~~~~~~iliTsR~~~-~--~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~  251 (398)
                       .......||.||.... +  .........+.++..+.++..+++...+......  ...+....+++.+.| .+..|..
T Consensus       216 ~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~l~~la~~t~G~s~~dl~~  293 (357)
T 3d8b_A          216 TSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC--LSEEEIEQIVQQSDAFSGADMTQ  293 (357)
T ss_dssp             --CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC--CCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             ccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC--ccHHHHHHHHHHcCCCCHHHHHH
Confidence             1123455665665432 1  1111334577899999999999987766332211  224568889999988 6667777


Q ss_pred             HHHHh
Q 015918          252 LGRFL  256 (398)
Q Consensus       252 l~~~l  256 (398)
                      ++...
T Consensus       294 l~~~a  298 (357)
T 3d8b_A          294 LCREA  298 (357)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76653

>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=98.85  E-value=2.9e-07  Score=85.41  Aligned_cols=184  Identities=11%  Similarity=0.142  Sum_probs=106.7

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELL  126 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (398)
                      -..++|.+..++.|...+..+   +.+.++++||+|+||||+++.+++.+........+.. .. .+.......+ ....
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g---~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~-~~-~~~~~~~~~i-r~~i   97 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEG---KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLE-LN-ASDDRGIDVV-RNQI   97 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTT---CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEE-EC-TTSCCSHHHH-HTHH
T ss_pred             HHHhcCcHHHHHHHHHHHhcC---CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEE-Ec-CcccccHHHH-HHHH
Confidence            356889999999999988763   3334899999999999999999998643321111111 00 1111122211 1122


Q ss_pred             HHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChh-H-HHhcCCCee
Q 015918          127 STLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQ-A-LINCGVNKI  202 (398)
Q Consensus       127 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~-~-~~~~~~~~~  202 (398)
                      ..+......              ..+.+-++|+|+++..  .....+...+........+++++.... + ....+.+..
T Consensus        98 ~~~~~~~~~--------------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~  163 (340)
T 1sxj_C           98 KDFASTRQI--------------FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  163 (340)
T ss_dssp             HHHHHBCCS--------------SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHhhccc--------------CCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhcee
Confidence            222111100              1234678999999642  233333333322234556666665432 1 112245568


Q ss_pred             EEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          203 YQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       203 ~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      +.+.+++.++..+.+...+.....  ...++....+++.++|.+.-+..+
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~--~i~~~~~~~i~~~s~G~~r~~~~~  211 (340)
T 1sxj_C          164 FRFQPLPQEAIERRIANVLVHEKL--KLSPNAEKALIELSNGDMRRVLNV  211 (340)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTC--CBCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             EeccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            899999999999988776622221  233566888999999999854433

>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=98.85  E-value=6.8e-07  Score=82.62  Aligned_cols=265  Identities=12%  Similarity=0.115  Sum_probs=141.3

Q ss_pred             ccCcccccchhHHHHHHHhccC--CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVG--LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~--~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-..++|.+..++.+...+...  .......++|+||+|+|||||++.++..+...+.   ...  +..  .....++ .
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~---~~s--g~~--~~~~~~l-~   94 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH---VTS--GPV--LVKQGDM-A   94 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE---EEE--TTT--CCSHHHH-H
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE---EEe--chH--hcCHHHH-H
Confidence            4457899998888888777532  0023467899999999999999999988744321   111  000  0011111 0


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCC------------------CCCcE
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWF------------------ASGSR  183 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~------------------~~~~~  183 (398)
                      .                     +...+ .++.++++|+++..  ...+.+...+...                  -+...
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 23347888998632  2222222111000                  01122


Q ss_pred             EEEEeCCh-hHHH--hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCC
Q 015918          184 ILITARDK-QALI--NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKR  260 (398)
Q Consensus       184 iliTsR~~-~~~~--~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~  260 (398)
                      ++-.++.. ....  .........+++.+.++..+++.+.+....  .....+.+..+++.+.|.|..+..+...+....
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~--~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a  230 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD--VEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDML  230 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Confidence            33333332 2111  112334688999999999999987653211  223457789999999999987765554432100


Q ss_pred             HHHHHHHHHHhccCChhhHHHHHHH---hHhcCchHHHHHHHHhh-cC-cCCcChHHHHHHHHhcCccccccHH-HHhhc
Q 015918          261 KEVWENAISKLEMVPQMEIQEVLKI---SYDGLDDKEKNIFLDIA-CF-LVGEDRDIVTKYLNACEFFATSGIE-VLVDK  334 (398)
Q Consensus       261 ~~~~~~~~~~l~~~~~~~v~~~l~~---~~~~L~~~~~~~l~~la-~~-~~~~~~~~l~~~~~~~~~~~~~~l~-~L~~~  334 (398)
                            ....-.......+..++..   .-..++...+.++..++ .| ..++..+.+...++.+....++..+ .|...
T Consensus       231 ------~~~~~~~It~~~v~~al~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~~~l~~~  304 (334)
T 1in4_A          231 ------TVVKADRINTDIVLKTMEVLNIDDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYEPYLLQA  304 (334)
T ss_dssp             ------HHHTCSSBCHHHHHHHHHHHTCCTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTHHHHHHT
T ss_pred             ------HHcCCCCcCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHHHHHHHc
Confidence                  0000001112223333322   11235555555554433 23 3347777777777654333333344 88899


Q ss_pred             cCeeeccCCceEec
Q 015918          335 SLITISEYNKIRMH  348 (398)
Q Consensus       335 ~Ll~~~~~~~~~~H  348 (398)
                      |+++....|++-..
T Consensus       305 g~i~~~~~gr~~~~  318 (334)
T 1in4_A          305 GFLARTPRGRIVTE  318 (334)
T ss_dssp             TSEEEETTEEEECH
T ss_pred             CCeecccccHHhhH
Confidence            99998877876443

>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=98.85  E-value=5e-08  Score=86.86  Aligned_cols=186  Identities=11%  Similarity=0.028  Sum_probs=99.4

Q ss_pred             CcccccchhHHHHHHHhcc---CC------CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLLGV---GL------TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~---~~------~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      ..++|.+...+.+.+++..   ..      ....+.++|+|++|+|||++|+.+++.....   .+.+.. ........ 
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~---~~~~~~-~~~~~~~~-   80 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP---FLAMAG-AEFVEVIG-   80 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC---EEEEET-TTTSSSST-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC---EEEech-HHHHhhcc-
Confidence            4678888887777665431   10      0344678999999999999999999886443   222221 01000000 


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-----------------hHHHHHccCCC--CC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-----------------QIEFLIGNLDW--FA  179 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-----------------~~~~l~~~l~~--~~  179 (398)
                      ..                 ........+.......+.+|+||+++...                 .+..++..+..  ..
T Consensus        81 ~~-----------------~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  143 (262)
T 2qz4_A           81 GL-----------------GAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT  143 (262)
T ss_dssp             TH-----------------HHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTT
T ss_pred             Ch-----------------hHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCC
Confidence            00                 00001112222223457899999997531                 12223222211  12


Q ss_pred             CCcEEEEEeCChhHHH--hc---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH-HHHHHH
Q 015918          180 SGSRILITARDKQALI--NC---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI-ALKILG  253 (398)
Q Consensus       180 ~~~~iliTsR~~~~~~--~~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~l~  253 (398)
                      .+..+|.||.......  ..   .....+.+++.+.++-.+++...+...... .........+++.+.|++- .|..++
T Consensus       144 ~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~~~l~~~~~g~~~~~l~~l~  222 (262)
T 2qz4_A          144 DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLT-QSSTFYSQRLAELTPGFSGADIANIC  222 (262)
T ss_dssp             CCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCC-BTHHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             CCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCC-cchhhHHHHHHHHCCCCCHHHHHHHH
Confidence            3556666665543211  11   233678899999999999988766322221 1122234678888887654 565555


Q ss_pred             HHh
Q 015918          254 RFL  256 (398)
Q Consensus       254 ~~l  256 (398)
                      ...
T Consensus       223 ~~a  225 (262)
T 2qz4_A          223 NEA  225 (262)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.83  E-value=2.7e-07  Score=84.96  Aligned_cols=182  Identities=13%  Similarity=0.088  Sum_probs=102.1

Q ss_pred             Cccc-ccchh--HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           48 NKLV-GVDSR--IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        48 ~~fv-GR~~e--l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..|+ |....  ...+...+.... ...+.++|+|++|+||||||+.+++.+.......+++.    .      .++...
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~-~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~----~------~~~~~~   79 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLG-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS----A------DDFAQA   79 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTT-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE----H------HHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcC-CCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE----H------HHHHHH
Confidence            3454 64443  334555554432 34578999999999999999999998755433344544    1      112222


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----hHHHHHccCCC-CCCCcEEEEEeCChhH------
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----QIEFLIGNLDW-FASGSRILITARDKQA------  193 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----~~~~l~~~l~~-~~~~~~iliTsR~~~~------  193 (398)
                      +...+...         ....+..... ++.+|+|||++...    ....+...+.. ...+..+|+|+..+..      
T Consensus        80 ~~~~~~~~---------~~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~  149 (324)
T 1l8q_A           80 MVEHLKKG---------TINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  149 (324)
T ss_dssp             HHHHHHHT---------CHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHHHcC---------cHHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhh
Confidence            22222111         1112222222 36699999996432    22222222211 1235567777754311      


Q ss_pred             ---HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          194 ---LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       194 ---~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                         .........+.+++ +.++..+++...+.....  ...++....+++.+ |++..+..+..
T Consensus       150 ~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~--~l~~~~l~~l~~~~-g~~r~l~~~l~  209 (324)
T 1l8q_A          150 DRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNL--ELRKEVIDYLLENT-KNVREIEGKIK  209 (324)
T ss_dssp             HHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTC--CCCHHHHHHHHHHC-SSHHHHHHHHH
T ss_pred             hHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhC-CCHHHHHHHHH
Confidence               11112336789999 999999999887632222  23357788899999 98876554433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.82  E-value=3.4e-07  Score=84.15  Aligned_cols=186  Identities=11%  Similarity=0.015  Sum_probs=102.8

Q ss_pred             CcccccchhHHHHHHHhcc---------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLLGV---------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~---------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      .+++|-+...+.|.+.+..         ......+.++|+||+|+|||+||+.+++.....  ..+.+.. ....     
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~--~~~~i~~-~~l~-----   83 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS--TFFSISS-SDLV-----   83 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC--EEEEEEC-CSSC-----
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC--cEEEEEh-HHHH-----
Confidence            4677888777777766521         111345789999999999999999999886221  1122221 0000     


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccC---CCCCCCc
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNL---DWFASGS  182 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l---~~~~~~~  182 (398)
                                  ..... .........+.......+.+|+||+++...             ....++..+   .....+.
T Consensus        84 ------------~~~~g-~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v  150 (322)
T 1xwi_A           84 ------------SKWLG-ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  150 (322)
T ss_dssp             ------------CSSCC-SCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTE
T ss_pred             ------------hhhhh-HHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCE
Confidence                        00000 000001111222223568899999997431             122222222   1123455


Q ss_pred             EEEEEeCChhH-HH--hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHHHHHHh
Q 015918          183 RILITARDKQA-LI--NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKILGRFL  256 (398)
Q Consensus       183 ~iliTsR~~~~-~~--~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~l~~~l  256 (398)
                      .||.||..+.. .+  .......+.++..+.++-.+++..++.....  .........+++.+.|. +..|..+++..
T Consensus       151 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~--~l~~~~l~~la~~t~G~sgadl~~l~~~A  226 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQN--SLTEADFRELGRKTDGYSGADISIIVRDA  226 (322)
T ss_dssp             EEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCB--CCCHHHHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCC--CCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            55656644311 11  1134467889999999999999877632221  12345688899999886 65677666544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.82  E-value=2.1e-08  Score=91.67  Aligned_cols=169  Identities=10%  Similarity=0.037  Sum_probs=94.2

Q ss_pred             cccccchhHHHHHHHhccC------------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc----ceEEEeechhh
Q 015918           49 KLVGVDSRIEEILSLLGVG------------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE----GSYFAHNVREA  112 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~------------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~----~~~~~~~~~~~  112 (398)
                      .++|.+...+.|.+.+...            .......++|+|++|+|||++|+.+++.+.....    ..+.+. ....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~-~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVT-RDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEEC-GGGT
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEc-HHHh
Confidence            4899999999988765421            0144567999999999999999999988644321    122222 1000


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC-----------hHhHHHHHccCCCCCCC
Q 015918          113 EETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH-----------PRQIEFLIGNLDWFASG  181 (398)
Q Consensus       113 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~-----------~~~~~~l~~~l~~~~~~  181 (398)
                      .                 ..... .........+...   .+.+|+||+++.           ......+...+......
T Consensus       111 ~-----------------~~~~g-~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~  169 (309)
T 3syl_A          111 V-----------------GQYIG-HTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDD  169 (309)
T ss_dssp             C-----------------CSSTT-CHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTT
T ss_pred             h-----------------hhccc-ccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCC
Confidence            0                 00000 0000011111111   345999999972           23344444444333456


Q ss_pred             cEEEEEeCChhHHHh-------c-CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHH
Q 015918          182 SRILITARDKQALIN-------C-GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKY  241 (398)
Q Consensus       182 ~~iliTsR~~~~~~~-------~-~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~  241 (398)
                      ..+|+|+........       . .....+.+++++.++..+++...+....  .....+....+.+.
T Consensus       170 ~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~--~~~~~~~~~~l~~~  235 (309)
T 3syl_A          170 LVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQN--YQMTPEAETALRAY  235 (309)
T ss_dssp             CEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTT--CEECHHHHHHHHHH
T ss_pred             EEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHH
Confidence            677777754321111       1 1237889999999999999987763211  12233445555554

>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=98.80  E-value=4.1e-07  Score=87.37  Aligned_cols=189  Identities=15%  Similarity=0.081  Sum_probs=107.5

Q ss_pred             cccCcccccchhHHHHHHHhcc---------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLGV---------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~---------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      ..-..++|.+...+.|.+.+..         ......+.++|+||+|+|||+||+.+++....    ..|+.    .+..
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~----~~~~~----v~~~  202 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFS----ISSS  202 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS----SEEEE----ECCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC----CCEEE----EeHH
Confidence            3446799999999999887631         00034578999999999999999999988621    12222    1110


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHccCCC---CC
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIGNLDW---FA  179 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~~l~~---~~  179 (398)
                       .   +.    .....     .........+.......+.+|+||+++..             .....++..+..   ..
T Consensus       203 -~---l~----~~~~g-----~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  269 (444)
T 2zan_A          203 -D---LV----SKWLG-----ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDN  269 (444)
T ss_dssp             ----------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCC
T ss_pred             -H---HH----hhhcc-----hHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCC
Confidence             0   10    01000     11111222222222456889999999743             123334444332   13


Q ss_pred             CCcEEEEEeCChhHH-H--hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHHHHH
Q 015918          180 SGSRILITARDKQAL-I--NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKILGRF  255 (398)
Q Consensus       180 ~~~~iliTsR~~~~~-~--~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l~~~  255 (398)
                      .+..||.||..+... +  .......+.++..+.++-..++..++....  ..........+++.+.| .+..|..+++.
T Consensus       270 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~--~~l~~~~l~~la~~t~G~sgadl~~l~~~  347 (444)
T 2zan_A          270 DGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQ--NSLTEADFQELGRKTDGYSGADISIIVRD  347 (444)
T ss_dssp             SSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSC--EECCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            455666666544211 1  112345778888888888899887763221  11234557888999988 56566666554


Q ss_pred             h
Q 015918          256 L  256 (398)
Q Consensus       256 l  256 (398)
                      .
T Consensus       348 a  348 (444)
T 2zan_A          348 A  348 (444)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.79  E-value=1.2e-07  Score=89.77  Aligned_cols=184  Identities=13%  Similarity=0.036  Sum_probs=102.0

Q ss_pred             cCcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           47 ENKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      -..++|.+..++.|..++..          .. ...+.++|+|++|+|||+||+.+++.....   .+.+.+ ....   
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~---~~~v~~-~~l~---  185 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNAT---FFNISA-ASLT---  185 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCE---EEEECS-CCC----
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCc---EEEeeH-HHhh---
Confidence            45799999999999998731          11 235789999999999999999998875432   122221 0000   


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHccC---C-CCC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIGNL---D-WFA  179 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~~l---~-~~~  179 (398)
                        ....        .     .........+.......+.+|+||+++..             .....++..+   . ...
T Consensus       186 --~~~~--------g-----~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          186 --SKYV--------G-----EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             --cccc--------c-----hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence              0000        0     00000111112222345679999999643             0111222111   1 112


Q ss_pred             CCcEEEEEeCChhHH-H-hc-CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH-HHHHHHHH
Q 015918          180 SGSRILITARDKQAL-I-NC-GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI-ALKILGRF  255 (398)
Q Consensus       180 ~~~~iliTsR~~~~~-~-~~-~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~l~~~  255 (398)
                      ....||.||...... . .. .....+.++..+.++-.+++...+.....  ....+....+++.+.|..- .|..++..
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~l~~~~~~~la~~~~g~~~~~l~~L~~~  328 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS--PLTQKELAQLARMTDGYSGSDLTALAKD  328 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC--CSCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            345566566543211 1 11 23356889999999999999877633222  2234567889999987554 66666554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.78  E-value=2.3e-08  Score=83.87  Aligned_cols=50  Identities=28%  Similarity=0.369  Sum_probs=42.7

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .-..++||+.+++.+.+.+..   ...+.++|+|++|+|||+||+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~---~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSR---RTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS---SSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccchhhcchHHHHHHHHHHhC---CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            345799999999999999976   34567899999999999999999998754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.75  E-value=2.4e-07  Score=84.16  Aligned_cols=185  Identities=17%  Similarity=0.078  Sum_probs=102.9

Q ss_pred             cccCcccccchhHHHHHHHhccC---------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhh-
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG---------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEE-  114 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~---------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-  114 (398)
                      ..-..++|.+..++.+.+.+...         .....+.++|+||+|+|||++|+.+++.....|   +.+.. ..... 
T Consensus        18 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~---~~i~~-~~l~~~   93 (297)
T 3b9p_A           18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATF---LNISA-ASLTSK   93 (297)
T ss_dssp             CCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEE---EEEES-TTTSSS
T ss_pred             CCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEeeH-HHHhhc
Confidence            34467999999999999877321         002357899999999999999999998764321   22221 00000 


Q ss_pred             -cCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHc---cCCC
Q 015918          115 -TGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIG---NLDW  177 (398)
Q Consensus       115 -~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~---~l~~  177 (398)
                       .......                    ....+.......+.+|+||+++..             .....++.   ....
T Consensus        94 ~~~~~~~~--------------------~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  153 (297)
T 3b9p_A           94 YVGDGEKL--------------------VRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPG  153 (297)
T ss_dssp             SCSCHHHH--------------------HHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-
T ss_pred             ccchHHHH--------------------HHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccc
Confidence             0001111                    111122222356789999999532             11112221   1111


Q ss_pred             C--CCCcEEEEEeCChhH-HH--hcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH-HHHH
Q 015918          178 F--ASGSRILITARDKQA-LI--NCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI-ALKI  251 (398)
Q Consensus       178 ~--~~~~~iliTsR~~~~-~~--~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-~i~~  251 (398)
                      .  .....+|.||..+.. .+  .......+.++..+.++-..++...+.....  ....+....+++.+.|++- .+..
T Consensus       154 ~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~--~~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          154 NPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGS--PLDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             -----CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSC--CSCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCCHHHHHH
Confidence            1  134556666665421 11  1123466778888888888888776532111  1224567889999988875 6655


Q ss_pred             HHHH
Q 015918          252 LGRF  255 (398)
Q Consensus       252 l~~~  255 (398)
                      +++.
T Consensus       232 l~~~  235 (297)
T 3b9p_A          232 LAKD  235 (297)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>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=98.67  E-value=9.2e-07  Score=80.46  Aligned_cols=176  Identities=13%  Similarity=0.090  Sum_probs=98.5

Q ss_pred             CcccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      ..++|.+...+.|.+++...          .-...+.++|+||+|+|||+||+.+++.....   .+.+.          
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~---~i~v~----------   81 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN---FISIK----------   81 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE---EEEEC----------
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC---EEEEE----------
Confidence            45888888888887766421          00345679999999999999999999886432   12222          


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHh----------------HHHHHccCC--CCC
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQ----------------IEFLIGNLD--WFA  179 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~----------------~~~l~~~l~--~~~  179 (398)
                      ..++.    .......     .......+.......+.+|+||+++....                ...++..+.  ...
T Consensus        82 ~~~l~----~~~~g~~-----~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPELL----TMWFGES-----EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHHH----HHHHTTC-----TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHHH----hhhcCch-----HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            11221    1121111     11122233333345689999999974211                223332221  113


Q ss_pred             CCcEEEEEeCChhHH-H-hc---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH
Q 015918          180 SGSRILITARDKQAL-I-NC---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA  248 (398)
Q Consensus       180 ~~~~iliTsR~~~~~-~-~~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~  248 (398)
                      .+..||.||..+... + ..   .....+.++..+.++-.+++...+.........   ....++..+.|+|-+
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~---~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV---DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC---CHHHHHHTCSSCCHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc---hHHHHHHHcCCCCHH
Confidence            355666677554221 1 11   234578899999999889887766322211111   145566777777653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.66  E-value=1.8e-07  Score=90.57  Aligned_cols=148  Identities=13%  Similarity=0.100  Sum_probs=84.7

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechhhhhcCCHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      -..++||+.+++.+...+..   .....++|+|++|+|||++|+.+++.+....     ....++.    .+..      
T Consensus       179 ld~iiGr~~~i~~l~~~l~r---~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~----l~~~------  245 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSR---RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT----LDMG------  245 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHC---SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC----C---------
T ss_pred             CCCccCcHHHHHHHHHHHhc---cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE----eeCC------
Confidence            34699999999999999976   2345678999999999999999999864432     1122222    1000      


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhH-------H
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQA-------L  194 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~-------~  194 (398)
                               ..... .........+.......+.+|+||  -..+....+.+.+.  ....++|.+|.....       .
T Consensus       246 ---------~~~~g-~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~  311 (468)
T 3pxg_A          246 ---------TKYRG-EFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDA  311 (468)
T ss_dssp             -----------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCS
T ss_pred             ---------ccccc-hHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCH
Confidence                     00000 111112233333334567899999  22222222333332  334566665554431       1


Q ss_pred             HhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          195 INCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       195 ~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      ...+....+.+++.+.++..+++....
T Consensus       312 al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          312 ALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHhCccceeCCCCHHHHHHHHHHHH
Confidence            111245679999999999999998654

>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=98.63  E-value=4.6e-07  Score=87.81  Aligned_cols=181  Identities=13%  Similarity=0.099  Sum_probs=102.1

Q ss_pred             CcccccchhHHHHHHHhccC-----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           48 NKLVGVDSRIEEILSLLGVG-----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~-----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      ..++|.+..+++|.+++...           . ...+.++|+|++|+|||++|+.+++.....   .+.+. ...... .
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~-~~~~~vLL~GppGtGKT~lAraia~~~~~~---fv~vn-~~~l~~-~  277 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGV-KPPRGILLYGPPGTGKTLIARAVANETGAF---FFLIN-GPEIMS-K  277 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTC-CCCCEEEEECSTTSSHHHHHHHHHHHCSSE---EEEEE-HHHHHT-S
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCC-CCCCcEEEECcCCCCHHHHHHHHHHHhCCC---EEEEE-chHhhh-h
Confidence            46899999999999887532           2 445679999999999999999998875322   22222 111110 0


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------HhHHHHHccCC--CCCCC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------RQIEFLIGNLD--WFASG  181 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~~~~~l~~~l~--~~~~~  181 (398)
                      ......                 ......+.....+.+.+|+||+++..             .....|+..+.  .....
T Consensus       278 ~~g~~~-----------------~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          278 LAGESE-----------------SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             CTTHHH-----------------HHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             hcchhH-----------------HHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence            000000                 00122233333566889999999411             11222322221  11335


Q ss_pred             cEEEEEeCChhH-HHhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHHHHH
Q 015918          182 SRILITARDKQA-LINC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKILGR  254 (398)
Q Consensus       182 ~~iliTsR~~~~-~~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~l~~  254 (398)
                      ..||.||..+.. .+..    .....+.++..+.++-.+++..++........   .....+++.+.|. +..|..++.
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~---~~l~~la~~t~g~s~~dL~~L~~  416 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAALCS  416 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCCcHHHHHHHHH
Confidence            566666655421 1111    23456889999999999999877632221111   1156677777764 555655544

>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=98.61  E-value=3.3e-07  Score=83.63  Aligned_cols=51  Identities=20%  Similarity=0.217  Sum_probs=39.8

Q ss_pred             CcccccchhHHHHHHHhccC-----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           48 NKLVGVDSRIEEILSLLGVG-----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~-----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +.++|++..++.+...+...           .......++|+|++|+|||++|+.+++.+..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   76 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45899999999998877530           0023467889999999999999999988743

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.58  E-value=5.8e-08  Score=78.31  Aligned_cols=47  Identities=17%  Similarity=0.134  Sum_probs=37.7

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++|+...++.+.+.+.... .....+.|+|++|+|||++|+.+.+..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a-~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS-ETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT-TCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHh-CCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999886433 344568899999999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.58  E-value=8.4e-07  Score=81.02  Aligned_cols=60  Identities=20%  Similarity=0.222  Sum_probs=43.6

Q ss_pred             CcccccchhHHHHHHHhccCC----C--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           48 NKLVGVDSRIEEILSLLGVGL----T--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~----~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..++|.+..++.+...+....    +  .....++|+|++|+|||++|+.+++.+.......+.+.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~   82 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRID   82 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEE
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEee
Confidence            348999999999988875321    0  12357999999999999999999998754433334443

>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=98.57  E-value=2.1e-07  Score=96.84  Aligned_cols=154  Identities=14%  Similarity=0.095  Sum_probs=83.3

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cc-eEEEeechhhhhcCCH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EG-SYFAHNVREAEETGKL  118 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~-~~~~~~~~~~~~~~~~  118 (398)
                      .-..++||+.+++.+.+.+..   ...+.++|+|++|+|||++|+.+++.+....      .. ++++. ......    
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~---~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~-~~~l~~----  239 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLR---RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ-MGSLLA----  239 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHC---SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC-C---------
T ss_pred             CCcccCCcHHHHHHHHHHHhc---CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEee-hHHhhc----
Confidence            345699999999999999976   3345678999999999999999999864321      11 22222 111000    


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC-CceEEEEEeCCCChH---------h-HHHHHccCCCCCCCcEEEEE
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT-RKKVLIVFDDVNHPR---------Q-IEFLIGNLDWFASGSRILIT  187 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~-~~~~LlvlDd~~~~~---------~-~~~l~~~l~~~~~~~~iliT  187 (398)
                               ..  .... .........+..... +.+.+|+||+++...         . ...+...+.  .....+|.+
T Consensus       240 ---------g~--~~~g-~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~a  305 (854)
T 1qvr_A          240 ---------GA--KYRG-EFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGA  305 (854)
T ss_dssp             ------------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEE
T ss_pred             ---------cC--ccch-HHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEe
Confidence                     00  0000 000001111222222 467899999997532         1 111222221  234445655


Q ss_pred             eCChhH------HHhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          188 ARDKQA------LINCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       188 sR~~~~------~~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      |.....      ....+....+.+++++.++..+++....
T Consensus       306 t~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          306 TTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             ECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             cCchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            544332      1112344568999999999999987543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.55  E-value=6.8e-07  Score=81.39  Aligned_cols=48  Identities=19%  Similarity=0.322  Sum_probs=39.6

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++|+...++.+.+.+.... .....++|+|++|+|||++|+.+.+..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a-~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA-PSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC-STTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHh-CCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            468999999999998876533 345678899999999999999998864

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.54  E-value=2e-06  Score=80.33  Aligned_cols=171  Identities=14%  Similarity=0.165  Sum_probs=96.9

Q ss_pred             CcccccchhHHHHHHHhcc-----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           48 NKLVGVDSRIEEILSLLGV-----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~-----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      .++.|-++..++|.+.+.-           +. ..++-++++||||+|||.||+.+++.....|   +.+. ........
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi-~~prGvLL~GPPGTGKTllAkAiA~e~~~~f---~~v~-~s~l~sk~  222 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGI-AQPKGVILYGPPGTGKTLLARAVAHHTDCKF---IRVS-GAELVQKY  222 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTC-CCCCCEEEESCSSSSHHHHHHHHHHHHTCEE---EEEE-GGGGSCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCC-CCCCceEEeCCCCCCHHHHHHHHHHhhCCCc---eEEE-hHHhhccc
Confidence            4578888888888876531           11 4567899999999999999999998865542   2222 11111100


Q ss_pred             --CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCC--
Q 015918          117 --KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLD--  176 (398)
Q Consensus       117 --~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~--  176 (398)
                        .....+..+                    +...-...|++|+||+++...                .+..++..+.  
T Consensus       223 vGese~~vr~l--------------------F~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  282 (405)
T 4b4t_J          223 IGEGSRMVREL--------------------FVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGF  282 (405)
T ss_dssp             TTHHHHHHHHH--------------------HHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHH--------------------HHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhcc
Confidence              111222222                    222224578999999996310                1222322221  


Q ss_pred             CCCCCcEEEEEeCChhH-HHh----cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          177 WFASGSRILITARDKQA-LIN----CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       177 ~~~~~~~iliTsR~~~~-~~~----~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      ....+..||.||..+.. .+.    ......+.++.-+.++-.++|+.++.........   -...+++.|.|.-
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            12345556666654421 111    1345678898888888889988776332221111   1667888887643

>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=98.50  E-value=7.3e-07  Score=91.76  Aligned_cols=151  Identities=15%  Similarity=0.147  Sum_probs=88.3

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhhh----hcC
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREAE----ETG  116 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~----~~~  116 (398)
                      -..++||+.+++.+.+.|..   .....++|+|++|+|||++|+.+++.+....      ...+|........    ...
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~---~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g  261 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCR---RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRG  261 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTS---SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSS
T ss_pred             CCCccCCHHHHHHHHHHHhc---cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccc
Confidence            35799999999999999976   3456678999999999999999998864321      2223322111110    000


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------HhHHHHHccCCCCCCCcEEEE
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------RQIEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------~~~~~l~~~l~~~~~~~~ili  186 (398)
                      .+...                    ....+......++.+|+||+++..          .....++..+.. .....+|.
T Consensus       262 ~~e~~--------------------l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~-~~~~~~I~  320 (758)
T 1r6b_X          262 DFEKR--------------------FKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIG  320 (758)
T ss_dssp             CHHHH--------------------HHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEE
T ss_pred             hHHHH--------------------HHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh-CCCeEEEE
Confidence            11111                    112222222345789999999744          122223322222 34555666


Q ss_pred             EeCChhHHH-------hcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          187 TARDKQALI-------NCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       187 TsR~~~~~~-------~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +|..+....       .......+.+++.+.++..+++....
T Consensus       321 at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          321 STTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             EeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            665433211       11234578899999999998887644

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.48  E-value=7.7e-07  Score=91.52  Aligned_cols=148  Identities=13%  Similarity=0.090  Sum_probs=85.5

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-----cceEEEeechhhhhcCCHHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-----EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      -..++||+.+++.+...+..   .....++|+|++|+|||++|+.+++.+....     ....++.    .+.       
T Consensus       179 ld~iiG~~~~i~~l~~~l~~---~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~----~~~-------  244 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSR---RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT----LDM-------  244 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHC---SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC----C---------
T ss_pred             CCCccCchHHHHHHHHHHhC---CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEE----ecc-------
Confidence            35699999999999999976   3345688999999999999999999864321     1111221    000       


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCChhHH-------
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQAL-------  194 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~~~~-------  194 (398)
                              +....+ .........+.......+.+|+||  ...+....+.+.+.  .....+|.+|......       
T Consensus       245 --------g~~~~G-~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~  311 (758)
T 3pxi_A          245 --------GTKYRG-EFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDA  311 (758)
T ss_dssp             -----------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCS
T ss_pred             --------cccccc-hHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccH
Confidence                    000000 111223333333444678899999  22222223333332  3455666666544311       


Q ss_pred             HhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          195 INCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       195 ~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      ...+....+.+++.+.++..+++....
T Consensus       312 al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          312 ALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            111244679999999999999998654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.46  E-value=2.2e-06  Score=81.29  Aligned_cols=172  Identities=15%  Similarity=0.196  Sum_probs=95.3

Q ss_pred             CcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC-
Q 015918           48 NKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG-  116 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-  116 (398)
                      .++.|-++..++|.+.+.-          ..-..++-++++||||+|||.||+.+++.....|   +.+. ........ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~---~~v~-~s~l~sk~~  256 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF---IFSP-ASGIVDKYI  256 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE---EEEE-GGGTCCSSS
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE---EEEe-hhhhccccc
Confidence            4577888888888776531          0114568899999999999999999999865442   2222 11111100 


Q ss_pred             -CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCC--C
Q 015918          117 -KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLD--W  177 (398)
Q Consensus       117 -~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~--~  177 (398)
                       .....+.                    ......-...|++|+||+++..             .   .+..++..+.  .
T Consensus       257 Gese~~ir--------------------~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          257 GESARIIR--------------------EMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             SHHHHHHH--------------------HHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             hHHHHHHH--------------------HHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence             0011111                    1122222457899999999521             0   1222332221  1


Q ss_pred             CCCCcEEEEEeCChhHHH-hc-C---CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          178 FASGSRILITARDKQALI-NC-G---VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~~-~~-~---~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      ...+..||.||..+.... .+ +   ....+.++.-+.++-.++|..++.........   -...+++.|.|+-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~---dl~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF---DFEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC---CHHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc---CHHHHHHhCCCCC
Confidence            134556777775543221 11 1   23467788778888888887766332211111   1567788887643

>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=98.45  E-value=1.3e-06  Score=79.33  Aligned_cols=145  Identities=10%  Similarity=0.081  Sum_probs=87.7

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh---ccCcceEEEeechhhhh-cCCHHHHHHHHHH
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS---RRFEGSYFAHNVREAEE-TGKLADLRKELLS  127 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~---~~f~~~~~~~~~~~~~~-~~~~~~~~~~i~~  127 (398)
                      |-++.++.|...+..   ++.+..+++||+|+||||+|..+++...   ...+...++.    .+. .....++ .++..
T Consensus         1 g~~~~~~~L~~~i~~---~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~----~~~~~~~id~i-r~li~   72 (305)
T 2gno_A            1 GAKDQLETLKRIIEK---SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID----PEGENIGIDDI-RTIKD   72 (305)
T ss_dssp             ---CHHHHHHHHHHT---CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC----CSSSCBCHHHH-HHHHH
T ss_pred             ChHHHHHHHHHHHHC---CCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc----CCcCCCCHHHH-HHHHH
Confidence            445667778888775   3367899999999999999999987521   1233444443    111 2222222 22333


Q ss_pred             HHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHhcCCCeeEE
Q 015918          128 TLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALINCGVNKIYQ  204 (398)
Q Consensus       128 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~~~~~~~~~  204 (398)
                      ......                ..+++-++|||+++.  ......|+..+...++.+.+|++|.++ .+.+..... .++
T Consensus        73 ~~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           73 FLNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HHTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             HHhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            332111                123456899999974  344555555554445566677666444 333333333 899


Q ss_pred             cCCCChhhhHHHHHHhh
Q 015918          205 IKELVHVDALKLLNQCA  221 (398)
Q Consensus       205 l~~L~~~e~~~Ll~~~~  221 (398)
                      +.+++.++..+.+...+
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            99999999999998776

>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=98.45  E-value=2e-06  Score=76.62  Aligned_cols=50  Identities=26%  Similarity=0.222  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ..|+|+...++.+.+.+.... .....++|+|++|+|||++|+.+++....
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~-~~~~~vll~G~~GtGKt~la~~i~~~~~~   55 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLA-PLDKPVLIIGERGTGKELIASRLHYLSSR   55 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHT-TSCSCEEEECCTTSCHHHHHHHHHHTSTT
T ss_pred             ccceeCCHHHHHHHHHHHHHh-CCCCCEEEECCCCCcHHHHHHHHHHhcCc
Confidence            458999999999887765432 33467889999999999999999987543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.45  E-value=4.4e-06  Score=79.10  Aligned_cols=170  Identities=14%  Similarity=0.094  Sum_probs=94.9

Q ss_pred             cccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC--
Q 015918           49 KLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG--  116 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~--  116 (398)
                      ++.|-++..++|.+.+.-          ..-..++-++++||+|+|||.||+.++......|   +.+. ...+....  
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f---i~vs-~s~L~sk~vG  285 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF---IRVI-GSELVQKYVG  285 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE---EEEE-GGGGCCCSSS
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe---EEEE-hHHhhcccCC
Confidence            688888888888775421          1115678899999999999999999998865542   2222 11111100  


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCC--CC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLD--WF  178 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~--~~  178 (398)
                      .....+..                    .+...-...|++|+||+++...                .+..++..+.  ..
T Consensus       286 esek~ir~--------------------lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  345 (467)
T 4b4t_H          286 EGARMVRE--------------------LFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP  345 (467)
T ss_dssp             HHHHHHHH--------------------HHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHHH--------------------HHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC
Confidence            11111111                    2222234578999999995310                1111222221  11


Q ss_pred             CCCcEEEEEeCChhH-HHh----cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC
Q 015918          179 ASGSRILITARDKQA-LIN----CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV  245 (398)
Q Consensus       179 ~~~~~iliTsR~~~~-~~~----~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~  245 (398)
                      ..+..||.||..+.. .+.    .+....+.++..+.++-.++|+.++.........   -...+++.|.|.
T Consensus       346 ~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dv---dl~~LA~~T~Gf  414 (467)
T 4b4t_H          346 RGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGI---RWELISRLCPNS  414 (467)
T ss_dssp             TTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSC---CHHHHHHHCCSC
T ss_pred             CCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCC---CHHHHHHHCCCC
Confidence            334555666644421 111    1345678888888888888887776332211111   156778888764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.44  E-value=2.5e-06  Score=75.67  Aligned_cols=184  Identities=13%  Similarity=0.013  Sum_probs=96.1

Q ss_pred             ccCcccccchhHHHHHHHhcc---C------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC
Q 015918           46 TENKLVGVDSRIEEILSLLGV---G------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG  116 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~---~------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  116 (398)
                      .-..++|.+...+.+.+.+..   .      .....+.++|+|++|+||||||+.+++.....|   +.+.. .....  
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~i~~-~~~~~--   83 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTISG-SDFVE--   83 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEECS-CSSTT--
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE---EEEeH-HHHHH--
Confidence            335688888777777665421   0      002245689999999999999999998764332   22221 00000  


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------------HhHHHHHccCC--CC
Q 015918          117 KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------------RQIEFLIGNLD--WF  178 (398)
Q Consensus       117 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------------~~~~~l~~~l~--~~  178 (398)
                                     .... .........+.......+.+++||+++..                ..+..++..+.  ..
T Consensus        84 ---------------~~~~-~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (257)
T 1lv7_A           84 ---------------MFVG-VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (257)
T ss_dssp             ---------------SCCC-CCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             ---------------Hhhh-hhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc
Confidence                           0000 00000112222233456789999998321                11222322221  11


Q ss_pred             CCCcEEEEEeCChh-HHHhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCC-ChHHHHHH
Q 015918          179 ASGSRILITARDKQ-ALINC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQG-VPIALKIL  252 (398)
Q Consensus       179 ~~~~~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Pl~i~~l  252 (398)
                      ..+..+|.||..+. +.+..    .....+.++..+.++-.+++...+........   .....++..+.| ++.-|..+
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 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHcCCCCHHHHHHH
Confidence            33455666665542 11111    22356778888888888888766522211111   114556777888 77777655


Q ss_pred             HH
Q 015918          253 GR  254 (398)
Q Consensus       253 ~~  254 (398)
                      +.
T Consensus       225 ~~  226 (257)
T 1lv7_A          225 VN  226 (257)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.41  E-value=1.1e-06  Score=73.49  Aligned_cols=45  Identities=24%  Similarity=0.152  Sum_probs=33.0

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +...++.+.+++..-.......++|+|++|+|||||++.++..+.
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            445555555555443223457899999999999999999999875

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.36  E-value=2.9e-06  Score=80.27  Aligned_cols=51  Identities=22%  Similarity=0.311  Sum_probs=40.1

Q ss_pred             CcccccchhHHHHHHHhcc-----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           48 NKLVGVDSRIEEILSLLGV-----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~-----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++.|-+...+.|.+.+.-           +. ..++-++++||||+|||+||+.+++...-.
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~-~~prGiLL~GPPGtGKT~lakAiA~~~~~~  233 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGI-DPPRGVLLYGPPGTGKTMLVKAVANSTKAA  233 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCC-CCCCEEEEESCTTTTHHHHHHHHHHHHTCE
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCC-CCCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4678888888888776531           11 456789999999999999999999887544

>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=98.35  E-value=2.5e-05  Score=75.27  Aligned_cols=97  Identities=9%  Similarity=-0.046  Sum_probs=60.5

Q ss_pred             EEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEe---------CC----h--hHHHhcCCCeeEEcCCCChhhhHHHH
Q 015918          155 VLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITA---------RD----K--QALINCGVNKIYQIKELVHVDALKLL  217 (398)
Q Consensus       155 ~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTs---------R~----~--~~~~~~~~~~~~~l~~L~~~e~~~Ll  217 (398)
                      -+++||+++.  .+....+...+....... +|+.|         .+    +  -.....+.+..+.+++++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~~-~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAPI-VIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCCE-EEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCCE-EEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            4999999974  445666666665444443 44333         11    1  11122345567899999999999999


Q ss_pred             HHhhcCCCCCCcchHHHHHHHHHHc-CCChHHHHHHHH
Q 015918          218 NQCAFGRDHPDASYIELTHEAIKYA-QGVPIALKILGR  254 (398)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~i~~~~-~g~Pl~i~~l~~  254 (398)
                      ..++....  ....++....+++.+ .|.|.....+..
T Consensus       376 ~~~~~~~~--~~~~~~~~~~i~~~a~~g~~r~a~~ll~  411 (456)
T 2c9o_A          376 KIRAQTEG--INISEEALNHLGEIGTKTTLRYSVQLLT  411 (456)
T ss_dssp             HHHHHHHT--CCBCHHHHHHHHHHHHHSCHHHHHHTHH
T ss_pred             HHHHHHhC--CCCCHHHHHHHHHHccCCCHHHHHHHHH
Confidence            87752111  123356678888888 888886655544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=5.4e-06  Score=77.70  Aligned_cols=171  Identities=13%  Similarity=0.127  Sum_probs=92.7

Q ss_pred             CcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC-
Q 015918           48 NKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG-  116 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-  116 (398)
                      .++.|-++..++|.+.+.-          .....++-++++||+|+|||.||+.++......|   +.+. ...+.... 
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f---i~v~-~s~l~sk~v  257 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF---LRIV-GSELIQKYL  257 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE---EEEE-SGGGCCSSS
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE---EEEE-HHHhhhccC
Confidence            3577888888887775521          1114568899999999999999999998865542   1222 11111100 


Q ss_pred             -CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCC--C
Q 015918          117 -KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLD--W  177 (398)
Q Consensus       117 -~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~--~  177 (398)
                       .....+..+                    +...-...|++|+||+++..             .   .+..++..+.  .
T Consensus       258 Gesek~ir~l--------------------F~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~  317 (437)
T 4b4t_I          258 GDGPRLCRQI--------------------FKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD  317 (437)
T ss_dssp             SHHHHHHHHH--------------------HHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCC
T ss_pred             chHHHHHHHH--------------------HHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcC
Confidence             111122221                    22222456899999998521             0   1122222211  1


Q ss_pred             CCCCcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC
Q 015918          178 FASGSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV  245 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~  245 (398)
                      ...+..||.||..+.... .+    .....+.++.-+.++-.++|..++.........   -...+++.+.|.
T Consensus       318 ~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv---dl~~LA~~T~Gf  387 (437)
T 4b4t_I          318 DRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV---NLETLVTTKDDL  387 (437)
T ss_dssp             CSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC---CHHHHHHHCCSC
T ss_pred             CCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC---CHHHHHHhCCCC
Confidence            234555666665443222 11    122457777778888888887766332211110   156677787664

>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=98.31  E-value=7.2e-07  Score=79.66  Aligned_cols=176  Identities=14%  Similarity=0.139  Sum_probs=92.7

Q ss_pred             ccCcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           46 TENKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      .-..++|.+...+.+.+.+..          .. ...+.++|+|++|+|||+||+.+++.....|-   .+.. ..... 
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vll~G~~GtGKT~la~~la~~~~~~~~---~v~~-~~~~~-   82 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGA-KIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFF---SMGG-SSFIE-   82 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSC-CCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCC---CCCS-CTTTT-
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCC-CCCceEEEECCCCCcHHHHHHHHHHHhCCCEE---Eech-HHHHH-
Confidence            345789999988888876641          11 22345889999999999999999988654321   1110 00000 


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHh-----------------HHHHHccCCCC
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQ-----------------IEFLIGNLDWF  178 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~-----------------~~~l~~~l~~~  178 (398)
                                  .....     ........+.......+.+|+||+++....                 +..++..+...
T Consensus        83 ------------~~~~~-----~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  145 (268)
T 2r62_A           83 ------------MFVGL-----GASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGF  145 (268)
T ss_dssp             ------------SCSSS-----CSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCS
T ss_pred             ------------hhcch-----HHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCc
Confidence                        00000     011111222222234678999999964321                 12222222211


Q ss_pred             ---CCCcEEEEEeCChhHH-H-hc---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH
Q 015918          179 ---ASGSRILITARDKQAL-I-NC---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       179 ---~~~~~iliTsR~~~~~-~-~~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                         .....+|.||..+... + ..   .....+.+++.+.++-.+++...+.........   ....+++.+.|+|-
T Consensus       146 ~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~---~~~~la~~~~g~~g  219 (268)
T 2r62_A          146 GSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDV---NLQEVAKLTAGLAG  219 (268)
T ss_dssp             SCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSC---CTTTTTSSSCSSCH
T ss_pred             ccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCcc---CHHHHHHHcCCCCH
Confidence               1234566666544211 1 11   123567888889999999987765322111110   13445666666654

>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=98.29  E-value=1.1e-05  Score=77.62  Aligned_cols=180  Identities=14%  Similarity=0.116  Sum_probs=96.6

Q ss_pred             CcccccchhHHHHHHHhccC---------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLLGVG---------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~---------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      ..++|.+..++++.+.+..-         ....++.++|+||+|+|||+||+.++......|   +.++. ...... ..
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f---~~is~-~~~~~~-~~   90 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF---FHISG-SDFVEL-FV   90 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCE---EEEEG-GGTTTC-CT
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCe---eeCCH-HHHHHH-Hh
Confidence            46888888777766654310         002345688999999999999999998764332   22221 011000 00


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------------HhHHHHHccCC--CCCC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------------RQIEFLIGNLD--WFAS  180 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------------~~~~~l~~~l~--~~~~  180 (398)
                      .                 .........+.......+.+|+||+++..                ..+..++..+.  ....
T Consensus        91 g-----------------~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~  153 (476)
T 2ce7_A           91 G-----------------VGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKE  153 (476)
T ss_dssp             T-----------------HHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGG
T ss_pred             c-----------------ccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCC
Confidence            0                 00000122233334467899999999532                11223332221  1123


Q ss_pred             CcEEEEEeCChhHHH--hc---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHHH
Q 015918          181 GSRILITARDKQALI--NC---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKIL  252 (398)
Q Consensus       181 ~~~iliTsR~~~~~~--~~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~l  252 (398)
                      +..||.+|..+....  ..   .....+.+++.+.++-.+++..++.........   ....+++.+.|+. .-|..+
T Consensus       154 ~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v---~l~~la~~t~G~sgadL~~l  228 (476)
T 2ce7_A          154 GIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV---NLEIIAKRTPGFVGADLENL  228 (476)
T ss_dssp             TEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCCHHHHHHH
T ss_pred             CEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh---hHHHHHHhcCCCcHHHHHHH
Confidence            556666666553221  11   233477888888888888887665332211111   1555888888887 344443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=4.8e-06  Score=78.87  Aligned_cols=179  Identities=15%  Similarity=0.139  Sum_probs=96.7

Q ss_pred             CcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcC-
Q 015918           48 NKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETG-  116 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-  116 (398)
                      .++.|-++..++|.+.+.-          .....++-++++||||+|||.||+.++......|   +.+. ........ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f---~~v~-~s~l~~~~v  256 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATF---LKLA-APQLVQMYI  256 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE---EEEE-GGGGCSSCS
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCE---EEEe-hhhhhhccc
Confidence            4688888888888776421          1114568899999999999999999998865442   2222 11111100 


Q ss_pred             -CHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCCC--
Q 015918          117 -KLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLDW--  177 (398)
Q Consensus       117 -~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~~--  177 (398)
                       .....+..++                    ...-...|++|+||+++..             .   .+..++..+..  
T Consensus       257 Gese~~ir~lF--------------------~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          257 GEGAKLVRDAF--------------------ALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             SHHHHHHHHHH--------------------HHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             chHHHHHHHHH--------------------HHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence             1111222221                    1122346899999999421             0   11223333221  


Q ss_pred             CCCCcEEEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCC-hHHHHH
Q 015918          178 FASGSRILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGV-PIALKI  251 (398)
Q Consensus       178 ~~~~~~iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~-Pl~i~~  251 (398)
                      ...+..||.||..+.... .+    .....+.++.-+.++-.++|+.++.........   -...+++.|.|. +--|..
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dv---dl~~lA~~t~G~sGADi~~  393 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDI---NWQELARSTDEFNGAQLKA  393 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCC---CHHHHHHHCSSCCHHHHHH
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcC---CHHHHHHhCCCCCHHHHHH
Confidence            133455666665543221 11    123567888888888888887665322211110   056778888764 333443


Q ss_pred             HH
Q 015918          252 LG  253 (398)
Q Consensus       252 l~  253 (398)
                      ++
T Consensus       394 l~  395 (434)
T 4b4t_M          394 VT  395 (434)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.26  E-value=2.8e-07  Score=74.03  Aligned_cols=48  Identities=17%  Similarity=0.114  Sum_probs=35.4

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      -.++|++..++++.+.+.... .....+.|+|++|+|||++|+.+.+..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~-~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAA-KRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHH-TCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHh-CCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            468999999999988876422 234568899999999999999987654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.25  E-value=4.9e-06  Score=85.54  Aligned_cols=152  Identities=14%  Similarity=0.138  Sum_probs=85.1

Q ss_pred             cCcccccchhHHHHHHHhccCC----C--CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHH
Q 015918           47 ENKLVGVDSRIEEILSLLGVGL----T--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~----~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  120 (398)
                      ...++|.+..++.+...+....    +  .....++++||+|+|||++|+.+++.+.......+.+.+ .......... 
T Consensus       490 ~~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~-s~~~~~~~~~-  567 (758)
T 3pxi_A          490 HSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDM-SEYMEKHSTS-  567 (758)
T ss_dssp             HTTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEG-GGGCSSCCCC-
T ss_pred             hCcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEec-hhcccccccc-
Confidence            3568999999998888775321    1  112369999999999999999999987544333344431 1111111100 


Q ss_pred             HHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCC-----------CCCCcEEEEE
Q 015918          121 LRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDW-----------FASGSRILIT  187 (398)
Q Consensus       121 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~-----------~~~~~~iliT  187 (398)
                                        .......+..   ....+|+||+++.  ......|+..+..           ...++.+|+|
T Consensus       568 ------------------~~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~t  626 (758)
T 3pxi_A          568 ------------------GGQLTEKVRR---KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMT  626 (758)
T ss_dssp             ---------------------CHHHHHH---CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEE
T ss_pred             ------------------cchhhHHHHh---CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEe
Confidence                              0011122211   2345999999974  3333333322211           1245678888


Q ss_pred             eCChh-----H---------HHhcC-CCeeEEcCCCChhhhHHHHHHhh
Q 015918          188 ARDKQ-----A---------LINCG-VNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       188 sR~~~-----~---------~~~~~-~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      |....     .         ..... ....+.+++++.++..+++...+
T Consensus       627 tn~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          627 SNVGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             ESSSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             CCCChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            86311     0         01112 33688999999999988886654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=98.22  E-value=7.4e-06  Score=83.35  Aligned_cols=180  Identities=12%  Similarity=0.076  Sum_probs=97.6

Q ss_pred             CcccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  117 (398)
                      .++.|-++.+++|.+.+.-          .....++-|+++||+|+|||+||+.+++.....   .+.+. ...      
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~---~~~v~-~~~------  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF---FFLIN-GPE------  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE---EEEEE-HHH------
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe---EEEEE-hHH------
Confidence            3577888888888876531          111456789999999999999999999775433   22222 111      


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccCCC--CCCCc
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNLDW--FASGS  182 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l~~--~~~~~  182 (398)
                                 +...... ..+......+.......|++|+||+++...             ....|+..+..  ...+.
T Consensus       274 -----------l~sk~~g-ese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          274 -----------IMSKLAG-ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             -----------HHSSCTT-HHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             -----------hhcccch-HHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence                       1110000 001112222333345679999999995210             12222222211  12344


Q ss_pred             EEEEEeCChh-HHHhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHHH
Q 015918          183 RILITARDKQ-ALINC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKIL  252 (398)
Q Consensus       183 ~iliTsR~~~-~~~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~l  252 (398)
                      .||.+|..+. +.+.+    .....++++..+.++=.++++.++........   -....+++.+.|+. .-|..+
T Consensus       342 ~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~d---vdl~~lA~~T~GfsgaDL~~L  414 (806)
T 3cf2_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAAL  414 (806)
T ss_dssp             EEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTT---CCHHHHHHHCCSCCHHHHHHH
T ss_pred             EEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcc---cCHHHHHHhcCCCCHHHHHHH
Confidence            4555554432 22211    23457888888888888888776532211111   11667888887754 334433

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.21  E-value=2e-05  Score=71.18  Aligned_cols=30  Identities=33%  Similarity=0.485  Sum_probs=25.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++.++|+||+|+|||+||+.+++.+...
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~l~~~   63 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRKMGIN   63 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHHHTCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            456789999999999999999999988444

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.07  E-value=4.1e-05  Score=74.09  Aligned_cols=46  Identities=20%  Similarity=0.107  Sum_probs=38.8

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +.++|++..++.+...+...     ..++|+|++|+|||+||+.+++....
T Consensus        22 ~~ivGq~~~i~~l~~al~~~-----~~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG-----ESVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT-----CEEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             hhhHHHHHHHHHHHHHHhcC-----CeeEeecCchHHHHHHHHHHHHHHhh
Confidence            44999999999998887653     37889999999999999999887643

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=98.06  E-value=0.00011  Score=64.77  Aligned_cols=179  Identities=15%  Similarity=0.088  Sum_probs=88.2

Q ss_pred             CcccccchhHHHHHHHhcc---------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLLGV---------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~---------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      ..++|.+....++.+....         ..-.-.+-++|+|++|+|||||++.++......   .+.+.. ..... ...
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~---~i~~~~-~~~~~-~~~   90 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITASG-SDFVE-MFV   90 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEEH-HHHHH-SCT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC---EEEeeH-HHHHH-HHh
Confidence            4577776665555443321         000112348999999999999999999886522   233321 00000 000


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCChH----------------hHHHHHccCCCC--C
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHPR----------------QIEFLIGNLDWF--A  179 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~~--~  179 (398)
                      ...                  ......+.+.. ...+.++++||++...                ....+...+...  .
T Consensus        91 ~~~------------------~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~  152 (254)
T 1ixz_A           91 GVG------------------AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  152 (254)
T ss_dssp             THH------------------HHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT
T ss_pred             hHH------------------HHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCC
Confidence            000                  00111122222 2457899999984211                122232222211  2


Q ss_pred             CCcEEEEEeCChhHHHh-----cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHHHH
Q 015918          180 SGSRILITARDKQALIN-----CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALKIL  252 (398)
Q Consensus       180 ~~~~iliTsR~~~~~~~-----~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~~l  252 (398)
                      ....++.++..+.....     ......+.++..+.++-.+++............   .....+++.+.|+- .-|..+
T Consensus       153 ~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~---~~~~~la~~~~G~~~~dl~~~  228 (254)
T 1ixz_A          153 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVGADLENL  228 (254)
T ss_dssp             CCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcc---cCHHHHHHHcCCCCHHHHHHH
Confidence            22344455555533221     123457888888888888888766522211111   11456777777764 334433

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.06  E-value=1.2e-05  Score=68.39  Aligned_cols=62  Identities=19%  Similarity=0.092  Sum_probs=42.0

Q ss_pred             ccCcccccch----hHHHHHHHhccCCCC-CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           46 TENKLVGVDS----RIEEILSLLGVGLTM-DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        46 ~~~~fvGR~~----el~~l~~~L~~~~~~-~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .-..|++...    .++.+.+++...... ..+.++|+|++|+|||+||+.+++........+.|+.
T Consensus        23 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           23 SLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             CTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3455776543    445556666543211 2278999999999999999999998766655566655

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=98.06  E-value=3.5e-05  Score=72.31  Aligned_cols=49  Identities=14%  Similarity=0.222  Sum_probs=36.2

Q ss_pred             cccccchhHHHHHHHhc----c-----------------------CCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           49 KLVGVDSRIEEILSLLG----V-----------------------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~----~-----------------------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++|.+...+.|...+.    .                       ........++++|++|+|||++|+.+++.+.
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            47888888877776661    0                       0002345789999999999999999998873

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=98.03  E-value=5.2e-05  Score=74.59  Aligned_cols=158  Identities=17%  Similarity=0.172  Sum_probs=79.1

Q ss_pred             cccccchhHHHHHHHhc----cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           49 KLVGVDSRIEEILSLLG----VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~----~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      .++|-++..+.+...+.    ... .....++|+||+|+||||||+.++..+...|-   .+.. ...   .....+...
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~-~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~---~i~~-~~~---~~~~~~~g~  153 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKS-LKGPILCLAGPPGVGKTSLAKSIAKSLGRKFV---RISL-GGV---RDESEIRGH  153 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSS-CCSCEEEEESSSSSSHHHHHHHHHHHHTCEEE---EECC-CC-------------
T ss_pred             HhccHHHHHHHHHHHHHHHHhccc-CCCCEEEEECCCCCCHHHHHHHHHHhcCCCeE---EEEe-ccc---chhhhhhhH
Confidence            47888777777765442    111 24568999999999999999999988744421   1110 000   011111100


Q ss_pred             HHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHh------HHHHHccCCCC---------------CCCcE
Q 015918          125 LLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQ------IEFLIGNLDWF---------------ASGSR  183 (398)
Q Consensus       125 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~------~~~l~~~l~~~---------------~~~~~  183 (398)
                      .....+      .........+.. ......+++||+++....      ...++..+...               ...+.
T Consensus       154 ~~~~ig------~~~~~~~~~~~~-a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~  226 (543)
T 3m6a_A          154 RRTYVG------AMPGRIIQGMKK-AGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVL  226 (543)
T ss_dssp             ----------------CHHHHHHT-TCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCE
T ss_pred             HHHHhc------cCchHHHHHHHH-hhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceE
Confidence            000000      001111222222 222333889999974321      12233332110               03455


Q ss_pred             EEEEeCChhH--HHhcCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          184 ILITARDKQA--LINCGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       184 iliTsR~~~~--~~~~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +|.||.....  .+..+....+.+++++.++-.+++..++
T Consensus       227 iI~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          227 FIATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EEEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             EEeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            6666654321  1111233678999999999999887754

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.02  E-value=0.00011  Score=65.77  Aligned_cols=182  Identities=15%  Similarity=0.085  Sum_probs=92.9

Q ss_pred             cccCcccccchhHHHHHHHhccC---------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLGVG---------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~---------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      ..-..++|.+...+++.+....-         .-.-.+-++|+|++|+|||||++.++......   .+.+.. ......
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~---~i~~~~-~~~~~~  112 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITASG-SDFVEM  112 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEEH-HHHHHS
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCC---EEEecH-HHHHHH
Confidence            34457899888777776654210         00112338999999999999999999886522   233331 000000


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHH-HHHhhCCceEEEEEeCCCCh----------------HhHHHHHccCCCC
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNF-QSKRLTRKKVLIVFDDVNHP----------------RQIEFLIGNLDWF  178 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlvlDd~~~~----------------~~~~~l~~~l~~~  178 (398)
                       .....                  ...... +.......+.++++||++..                ..+..+...+...
T Consensus       113 -~~~~~------------------~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg  173 (278)
T 1iy2_A          113 -FVGVG------------------AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF  173 (278)
T ss_dssp             -TTTHH------------------HHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTC
T ss_pred             -HhhHH------------------HHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCC
Confidence             00000                  001111 11112245789999998421                1122233222211


Q ss_pred             --CCCcEEEEEeCChhHHH---h--cCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-HHHH
Q 015918          179 --ASGSRILITARDKQALI---N--CGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-IALK  250 (398)
Q Consensus       179 --~~~~~iliTsR~~~~~~---~--~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l~i~  250 (398)
                        .....++.++..+....   .  ......+.+++.+.++-.+++...+........   .....++..+.|+. .-|.
T Consensus       174 ~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~---~~~~~la~~~~G~~~~dl~  250 (278)
T 1iy2_A          174 EKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVGADLE  250 (278)
T ss_dssp             CTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHH
T ss_pred             CCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcc---cCHHHHHHHcCCCCHHHHH
Confidence              12233444555443211   1  124457888888988888888766532211111   11456777777766 4444


Q ss_pred             HH
Q 015918          251 IL  252 (398)
Q Consensus       251 ~l  252 (398)
                      .+
T Consensus       251 ~l  252 (278)
T 1iy2_A          251 NL  252 (278)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.02  E-value=9.8e-05  Score=71.39  Aligned_cols=179  Identities=15%  Similarity=0.094  Sum_probs=95.0

Q ss_pred             cccCcccccchhHHHHHHHhc---cC------CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhc
Q 015918           45 ETENKLVGVDSRIEEILSLLG---VG------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEET  115 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~---~~------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  115 (398)
                      ..-.+++|.+....++.+...   ..      .-.-.+-++|+||+|+|||+||+.++......   .+.+.. ..... 
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~---~i~i~g-~~~~~-  102 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITASG-SDFVE-  102 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCC---EEEEEG-GGGTS-
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC---EEEEeh-hHHHH-
Confidence            344578999888777766542   11      00123458999999999999999999876422   233331 11100 


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh----CCceEEEEEeCCCCh----------------HhHHHHHccC
Q 015918          116 GKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL----TRKKVLIVFDDVNHP----------------RQIEFLIGNL  175 (398)
Q Consensus       116 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l----~~~~~LlvlDd~~~~----------------~~~~~l~~~l  175 (398)
                      .....                     ....+...+    ...+.+++||+++..                ..+..++..+
T Consensus       103 ~~~g~---------------------~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~L  161 (499)
T 2dhr_A          103 MFVGV---------------------GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEM  161 (499)
T ss_dssp             SCTTH---------------------HHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHG
T ss_pred             hhhhh---------------------HHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHh
Confidence            00000                     011111111    234689999999521                1122333322


Q ss_pred             CC--CCCCcEEEEEeCChhHHHh--c---CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh-H
Q 015918          176 DW--FASGSRILITARDKQALIN--C---GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP-I  247 (398)
Q Consensus       176 ~~--~~~~~~iliTsR~~~~~~~--~---~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-l  247 (398)
                      ..  ......++.+|..+.....  .   .....+.++..+.++-.+++..++........   .....++..+.|+. .
T Consensus       162 dg~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~d---v~l~~lA~~t~G~~ga  238 (499)
T 2dhr_A          162 DGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVGA  238 (499)
T ss_dssp             GGCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCS---STTHHHHTTSCSCCHH
T ss_pred             cccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChH---HHHHHHHHhcCCCCHH
Confidence            21  1233445556655543221  1   13357788888888888888766532221111   11556778888876 4


Q ss_pred             HHHHH
Q 015918          248 ALKIL  252 (398)
Q Consensus       248 ~i~~l  252 (398)
                      -|..+
T Consensus       239 dL~~l  243 (499)
T 2dhr_A          239 DLENL  243 (499)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.96  E-value=5.6e-06  Score=66.80  Aligned_cols=37  Identities=16%  Similarity=0.328  Sum_probs=28.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++|+|++|+|||||++.++..........+|+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~   71 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYID   71 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEc
Confidence            3468999999999999999999998755322255654

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=97.92  E-value=3.1e-05  Score=72.29  Aligned_cols=49  Identities=16%  Similarity=0.269  Sum_probs=38.0

Q ss_pred             cccccchhHHHHHHHhc------------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           49 KLVGVDSRIEEILSLLG------------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~------------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++|.+..++.+...+.            .......+.++++||+|+|||++|+.+++.+.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            37899999888888772            11102456789999999999999999998873

>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=97.83  E-value=3.6e-05  Score=79.07  Aligned_cols=51  Identities=20%  Similarity=0.237  Sum_probs=39.1

Q ss_pred             cCcccccchhHHHHHHHhccCC----C--CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           47 ENKLVGVDSRIEEILSLLGVGL----T--MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~----~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...++|.+..++.+...+....    +  .....++++||+|+|||++|+.+++.+.
T Consensus       457 ~~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          457 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             HhhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            3468999999988888764211    0  1234789999999999999999998873

>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=97.75  E-value=0.00017  Score=75.07  Aligned_cols=52  Identities=21%  Similarity=0.291  Sum_probs=40.2

Q ss_pred             CcccccchhHHHHHHHhccC----CC--CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           48 NKLVGVDSRIEEILSLLGVG----LT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++|.+..++.+...+...    .+  .....++|+||+|+|||++|+.+++.+...
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~  615 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT  615 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            45899999999988877531    11  123578999999999999999999987543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.66  E-value=0.00022  Score=64.79  Aligned_cols=60  Identities=17%  Similarity=0.207  Sum_probs=40.5

Q ss_pred             Ccccc----cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh-ccCcceEEEe
Q 015918           48 NKLVG----VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS-RRFEGSYFAH  107 (398)
Q Consensus        48 ~~fvG----R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~-~~f~~~~~~~  107 (398)
                      ..|++    +...++.+.+++........+.+.|+|++|+|||+||..+++.+. .....+.++.
T Consensus       124 d~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          124 SDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             GGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             hhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            45664    334455566666543212257899999999999999999999876 5544455554

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.62  E-value=0.002  Score=59.40  Aligned_cols=157  Identities=8%  Similarity=-0.067  Sum_probs=98.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh-ccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS-RRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK  148 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~  148 (398)
                      .-.++.+++|+.|.||++.+..+.+.+. ..|.....+.    .....++.++...+...                   .
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~-------------------p   72 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS----IDPNTDWNAIFSLCQAM-------------------S   72 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE----CCTTCCHHHHHHHHHHH-------------------H
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE----ecCCCCHHHHHHHhcCc-------------------C
Confidence            3457899999999999999999998754 3332211111    11124444444332111                   1


Q ss_pred             hhCCceEEEEEeCCCC-h--HhHHHHHccCCCCCCCcEEEEEeCC-------hhHHHh-cCCCeeEEcCCCChhhhHHHH
Q 015918          149 RLTRKKVLIVFDDVNH-P--RQIEFLIGNLDWFASGSRILITARD-------KQALIN-CGVNKIYQIKELVHVDALKLL  217 (398)
Q Consensus       149 ~l~~~~~LlvlDd~~~-~--~~~~~l~~~l~~~~~~~~iliTsR~-------~~~~~~-~~~~~~~~l~~L~~~e~~~Ll  217 (398)
                       +-+.+-++|+|+++. .  .....+...+...++++.+|+++..       ..+... .+.+..++..+++.++....+
T Consensus        73 -lf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l  151 (343)
T 1jr3_D           73 -LFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWV  151 (343)
T ss_dssp             -HCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHH
T ss_pred             -CccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHH
Confidence             123455889999865 3  3455565555544556666666533       122222 356688999999999999988


Q ss_pred             HHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHH
Q 015918          218 NQCAFGRDHPDASYIELTHEAIKYAQGVPIALKIL  252 (398)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l  252 (398)
                      ...+...+  .....+.+..+++.++|++..+...
T Consensus       152 ~~~~~~~g--~~i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          152 AARAKQLN--LELDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHHHHTT--CEECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHHHHcC--CCCCHHHHHHHHHHhchHHHHHHHH
Confidence            87763222  2234577899999999999877643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.61  E-value=0.0016  Score=57.98  Aligned_cols=125  Identities=16%  Similarity=0.133  Sum_probs=66.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh-hCC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR-LTR  152 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~  152 (398)
                      -++|+||+|+|||||++.++....-.   .+++.. .... ..........                  +..+.+. ...
T Consensus        46 GvlL~Gp~GtGKTtLakala~~~~~~---~i~i~g-~~l~-~~~~~~~~~~------------------i~~vf~~a~~~  102 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVANESGLN---FISVKG-PELL-NMYVGESERA------------------VRQVFQRAKNS  102 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHTTCE---EEEEET-TTTC-SSTTHHHHHH------------------HHHHHHHHHHT
T ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCC---EEEEEc-HHHH-hhhhhHHHHH------------------HHHHHHHHHhc
Confidence            39999999999999999999875432   233331 0110 0011111100                  1111111 134


Q ss_pred             ceEEEEEeCCCChH-------------hHHHHHccCCC--CCCCcEEEEEeCChhHHHh-----cCCCeeEEcCCCChhh
Q 015918          153 KKVLIVFDDVNHPR-------------QIEFLIGNLDW--FASGSRILITARDKQALIN-----CGVNKIYQIKELVHVD  212 (398)
Q Consensus       153 ~~~LlvlDd~~~~~-------------~~~~l~~~l~~--~~~~~~iliTsR~~~~~~~-----~~~~~~~~l~~L~~~e  212 (398)
                      .+.++++|+++...             ....+...+..  ......++.++..+.....     ......+.++..+.++
T Consensus       103 ~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~  182 (274)
T 2x8a_A          103 APCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPAD  182 (274)
T ss_dssp             CSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHH
T ss_pred             CCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHH
Confidence            57899999996321             11222222211  1223445556655533221     1345678888889888


Q ss_pred             hHHHHHHhh
Q 015918          213 ALKLLNQCA  221 (398)
Q Consensus       213 ~~~Ll~~~~  221 (398)
                      -.+++....
T Consensus       183 r~~il~~~~  191 (274)
T 2x8a_A          183 RLAILKTIT  191 (274)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            888887765

>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=97.60  E-value=0.00028  Score=60.41  Aligned_cols=45  Identities=22%  Similarity=0.149  Sum_probs=31.7

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-..+.+.- ....++.|.|++|+|||||+..++.  . ....++|+.
T Consensus         8 ~LD~~l~Ggi-~~G~~~~i~G~~GsGKTtl~~~l~~--~-~~~~v~~i~   52 (220)
T 2cvh_A            8 SLDSLLGGGF-APGVLTQVYGPYASGKTTLALQTGL--L-SGKKVAYVD   52 (220)
T ss_dssp             HHHHHTTSSB-CTTSEEEEECSTTSSHHHHHHHHHH--H-HCSEEEEEE
T ss_pred             HHHHhhcCCC-cCCEEEEEECCCCCCHHHHHHHHHH--H-cCCcEEEEE
Confidence            3444443333 5567999999999999999999998  2 223466665

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.51  E-value=0.00019  Score=60.03  Aligned_cols=120  Identities=14%  Similarity=0.069  Sum_probs=62.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhc--CCCCCCCCc----c----
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLN--DGNMNKFPN----I----  141 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~--~~~~~~~~~----~----  141 (398)
                      ...|.|++..|.||||+|..++-+...+--.+.++...... .......++..+.-.+..  .+..-...+    .    
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-WPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-SCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-CCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            35677788888999999999998866666566666533221 112222232222000000  011000100    0    


Q ss_pred             -chHHHHHhhCC-ceEEEEEeCCC-----ChHhHHHHHccCCCCCCCcEEEEEeCChh
Q 015918          142 -GLNFQSKRLTR-KKVLIVFDDVN-----HPRQIEFLIGNLDWFASGSRILITARDKQ  192 (398)
Q Consensus       142 -~~~~l~~~l~~-~~~LlvlDd~~-----~~~~~~~l~~~l~~~~~~~~iliTsR~~~  192 (398)
                       ........+.+ +-=|||||++.     ..-..+.++..+........||+|+|..+
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence             22223334433 34499999982     22223333333333356778999999863

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.41  E-value=0.00028  Score=59.81  Aligned_cols=47  Identities=23%  Similarity=0.266  Sum_probs=36.5

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .|++.++.|.+.+.........+++|.|++|+||||+++.+...+..
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            35667777777776533245689999999999999999999987643

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.36  E-value=0.00017  Score=66.16  Aligned_cols=48  Identities=19%  Similarity=0.248  Sum_probs=40.4

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...++|++..++.+...+...     ..++++|++|+|||+||+.+++.+...
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~~-----~~vll~G~pGtGKT~la~~la~~~~~~   73 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICTG-----GHILLEGVPGLAKTLSVNTLAKTMDLD   73 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHT-----CCEEEESCCCHHHHHHHHHHHHHTTCC
T ss_pred             ccceeCcHHHHHHHHHHHHcC-----CeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            356999999999998888652     368899999999999999999887544

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.36  E-value=9.5e-05  Score=63.60  Aligned_cols=38  Identities=16%  Similarity=-0.215  Sum_probs=30.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+..+++++|++|+||||++..++++...+...+.++.
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~   47 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFK   47 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEE
Confidence            34578999999999999999999998776655555554

>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=97.36  E-value=0.0002  Score=72.92  Aligned_cols=50  Identities=20%  Similarity=0.233  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHhccC----------CCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           49 KLVGVDSRIEEILSLLGVG----------LTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~----------~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+.|-++..+.|.+.+.-.          .....+-++++||+|+|||.||+.++.....
T Consensus       478 diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~  537 (806)
T 3cf2_A          478 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA  537 (806)
T ss_dssp             TCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTC
T ss_pred             HhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCC
Confidence            4556666666666654311          1134567899999999999999999987543

>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=97.35  E-value=0.00092  Score=61.66  Aligned_cols=80  Identities=18%  Similarity=0.151  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHhccccc------cccCc-ccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           27 KLIEEIVSEVLERLDDTF------ETENK-LVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        27 ~~i~~~~~~~~~~l~~~~------~~~~~-fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +-++....++..+...-.      ..... .-.-..-+..|-..|. +.- +...++.|.|++|+|||||+.+++.....
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~TG~~~LD~~Lg~GGi-~~G~i~~I~GppGsGKSTLal~la~~~~~   87 (356)
T 3hr8_A            9 SVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGY-PRGRIVEIFGQESSGKTTLALHAIAEAQK   87 (356)
T ss_dssp             HHHHHHHHHHHHHHCTTSSCCTTCCSCCCCCCEECCSCHHHHHHTSSSSE-ETTEEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCceechhccccCCCceecCCCHHHHHHhccCCc-cCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345566666666653321      11111 2233444566666676 433 56789999999999999999999988765


Q ss_pred             cCcceEEEe
Q 015918           99 RFEGSYFAH  107 (398)
Q Consensus        99 ~f~~~~~~~  107 (398)
                      .-..++|+.
T Consensus        88 ~gg~VlyId   96 (356)
T 3hr8_A           88 MGGVAAFID   96 (356)
T ss_dssp             TTCCEEEEE
T ss_pred             cCCeEEEEe
Confidence            545567776

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.23  E-value=0.00013  Score=60.88  Aligned_cols=28  Identities=25%  Similarity=0.452  Sum_probs=24.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +.|+|+||+|+|||||++.+.......|
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            5689999999999999999988765554

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.21  E-value=5.8e-05  Score=63.10  Aligned_cols=34  Identities=18%  Similarity=-0.144  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+++++|++|+||||++..++++.......+.++
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            5788999999999999988887754433334444

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.19  E-value=0.0019  Score=59.88  Aligned_cols=82  Identities=22%  Similarity=0.190  Sum_probs=53.1

Q ss_pred             chHHHHHHHHHHHHhccccc------cccCcccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           25 ESKLIEEIVSEVLERLDDTF------ETENKLVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        25 ~~~~i~~~~~~~~~~l~~~~------~~~~~fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+.++....++..+.....      ......-+-..-+..|-..|. +.- +...++.|+|++|+||||||.+++....
T Consensus        21 ~~~~l~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl-~~G~li~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           21 RSKAIETAMSQIEKAFGKGSIMKLGAESKLDVQVVSTGSLSLDLALGVGGI-PRGRITEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             HHHHHHHHHHHHHHHHCTTSSCCTTSCCCCCCCEECCSCHHHHHHTSSSSE-ETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCcceeccccccccCceecCCCHHHHHHhCCCCc-cCCcEEEEEcCCCCChHHHHHHHHHHHH
Confidence            34556666666666543321      111223334445666766675 333 5667899999999999999999998866


Q ss_pred             ccCcceEEEe
Q 015918           98 RRFEGSYFAH  107 (398)
Q Consensus        98 ~~f~~~~~~~  107 (398)
                      .....++|+.
T Consensus       100 ~~g~~vlyi~  109 (366)
T 1xp8_A          100 KAGGTCAFID  109 (366)
T ss_dssp             HTTCCEEEEE
T ss_pred             HCCCeEEEEE
Confidence            5555677876

>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=97.18  E-value=0.00086  Score=62.03  Aligned_cols=109  Identities=13%  Similarity=0.104  Sum_probs=60.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE-EeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF-AHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~-~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ....++|.||.|+|||||++.++..+.......++ +.+.........         ...................+...
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~---------~~~v~q~~~~~~~~~~~~~La~a  192 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESK---------KCLVNQREVHRDTLGFSEALRSA  192 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCS---------SSEEEEEEBTTTBSCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhcc---------ccceeeeeeccccCCHHHHHHHH
Confidence            34599999999999999999998876544222332 221100000000         00000000000011144577788


Q ss_pred             hCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCCh
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDK  191 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~  191 (398)
                      +...|=+|++|+..+.+....+....   ..+..+++|+-..
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~  231 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTT  231 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCS
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccC
Confidence            88889999999998766655544332   2355677777544

>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=97.15  E-value=0.00025  Score=63.98  Aligned_cols=26  Identities=23%  Similarity=0.234  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++.|+|++|+|||+||.+++..
T Consensus       121 ~~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          121 YASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            34567889999999999999999987

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.13  E-value=0.0018  Score=58.93  Aligned_cols=55  Identities=22%  Similarity=0.108  Sum_probs=39.2

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-..-+..|-..+ ++- ....+++|.|++|+|||||+.+++.....+...+.|++
T Consensus        49 ~~i~TG~~~LD~~l-gGl-~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           49 TGVPSGFTELDRMT-YGY-KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             CSBCCSCHHHHHHH-SSB-CTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CCccCChHHHHhhc-CCC-CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            34444455555555 323 56679999999999999999999987655445677766

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.13  E-value=0.00074  Score=57.35  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|.||||+||+|.|+.+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57889999999999999998775

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.11  E-value=0.00044  Score=58.08  Aligned_cols=43  Identities=19%  Similarity=0.117  Sum_probs=32.8

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ..-+..+..++.+ . ++.+.++|+||+|+||||+|..+++.+..
T Consensus        42 ~~f~~~l~~~~~~-i-Pkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           42 ITFLGALKSFLKG-T-PKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHHHHT-C-TTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhc-C-CcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3445666666654 2 45567999999999999999999988754

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.10  E-value=0.00081  Score=60.46  Aligned_cols=34  Identities=18%  Similarity=0.016  Sum_probs=28.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhcc--CcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRR--FEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~--f~~~~~~~  107 (398)
                      ++.|.|++|+|||||+.+++......  -..++|+.
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            78999999999999999999886654  34577776

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.09  E-value=0.0003  Score=58.16  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+|+|+|++|+||||+++.+.+.+.
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

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.08  E-value=0.002  Score=59.39  Aligned_cols=50  Identities=20%  Similarity=0.167  Sum_probs=36.0

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~  107 (398)
                      +..|-..|.+.- +...++.|+|++|+|||+||.+++.....      .-..++|+.
T Consensus       108 ~~~LD~~LgGGl-~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~  163 (343)
T 1v5w_A          108 SQEFDKLLGGGI-ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID  163 (343)
T ss_dssp             CHHHHHHTTSSB-CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE
T ss_pred             ChhHHHHhcCCC-CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            445555554433 56789999999999999999999987432      234567776

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.07  E-value=0.0024  Score=54.50  Aligned_cols=27  Identities=19%  Similarity=0.190  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.++|+|.||||+||||.|..+++.+
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            677899999999999999999998875

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=97.05  E-value=0.018  Score=53.48  Aligned_cols=52  Identities=27%  Similarity=0.287  Sum_probs=38.2

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...++|....+.++...+.... .....+.|+|++|+||+++|+.+.+.....
T Consensus       128 ~~~~ig~s~~~~~~~~~~~~~a-~~~~~vli~GesGtGKe~lAr~ih~~s~r~  179 (368)
T 3dzd_A          128 EIEFVGEHPKILEIKRLIPKIA-KSKAPVLITGESGTGKEIVARLIHRYSGRK  179 (368)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHH-TSCSCEEEECCTTSSHHHHHHHHHHHHCCC
T ss_pred             cccccccchHHHHHHhhhhhhh-ccchhheEEeCCCchHHHHHHHHHHhcccc
Confidence            4578999988888877664322 333457899999999999999887654333

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.01  E-value=0.00064  Score=57.87  Aligned_cols=42  Identities=17%  Similarity=0.226  Sum_probs=31.1

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+++|.+.+.... ....+++|.|++|+|||||++.++..+..
T Consensus         7 ~~~~~~~~~~~~~-~~g~~v~I~G~sGsGKSTl~~~l~~~~~~   48 (208)
T 3c8u_A            7 LCQGVLERLDPRQ-PGRQLVALSGAPGSGKSTLSNPLAAALSA   48 (208)
T ss_dssp             HHHHHHHHSCTTC-CSCEEEEEECCTTSCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3445555544322 56689999999999999999999988653

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=97.00  E-value=0.0022  Score=58.72  Aligned_cols=72  Identities=13%  Similarity=-0.011  Sum_probs=47.8

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      ....|-..-+..|-..+.+-  ....+++|.|++|+|||||+.+++......-..+.|++      ...+..++...++.
T Consensus        24 ~~~~gi~TG~~~LD~~~gGl--~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS------lEms~~ql~~Rlls   95 (338)
T 4a1f_A           24 LEVTGIPTGFVQLDNYTSGF--NKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS------LEMSAEQLALRALS   95 (338)
T ss_dssp             TCCCSBCCSCHHHHHHHCSB--CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE------SSSCHHHHHHHHHH
T ss_pred             CCcCcccCCChHHHHHhcCC--CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe------CCCCHHHHHHHHHH
Confidence            34555555566666666432  45679999999999999999999988665545566665      12344455544443

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=96.92  E-value=0.025  Score=52.86  Aligned_cols=48  Identities=25%  Similarity=0.285  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..++|....++++.+.+.... .....+.|+|++|+|||++|+.+....
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~a-~~~~~vli~Ge~GtGK~~lAr~ih~~s  184 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKIS-CAECPVLITGESGVGKEVVARLIHKLS  184 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHT-TCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             hhhhhccHHhhHHHHHHHHhc-CCCCCeEEecCCCcCHHHHHHHHHHhc
Confidence            468999999999888776443 233446899999999999998877653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.90  E-value=0.00093  Score=55.76  Aligned_cols=27  Identities=22%  Similarity=0.233  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..|+|.|++|+||||+++.+.+.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   28 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            468999999999999999999987644

>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=96.90  E-value=0.0011  Score=56.00  Aligned_cols=29  Identities=24%  Similarity=0.456  Sum_probs=25.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ....+++|.|++|+||||+++.++..+..
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~   51 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQ   51 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45679999999999999999999988763

>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=96.90  E-value=0.00057  Score=55.96  Aligned_cols=25  Identities=12%  Similarity=0.074  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+|+|.|++|+||||+++.+.+.+.
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            3789999999999999999988764

>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=96.86  E-value=0.00098  Score=60.26  Aligned_cols=38  Identities=18%  Similarity=0.226  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....+++|+|++|+||||++..++..+......+.++.
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~  139 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA  139 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEc
Confidence            35679999999999999999999988765544444443

>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=96.86  E-value=0.00091  Score=58.45  Aligned_cols=41  Identities=12%  Similarity=0.024  Sum_probs=29.4

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+.++...+.... .....|+|.|++|+||||+++.+.+.+
T Consensus        13 ~~~~~~~~~~~~~~-~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           13 DLLNELKRRYACLS-KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHHT-SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444444433322 456789999999999999999998775

>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=96.85  E-value=0.00053  Score=63.27  Aligned_cols=49  Identities=16%  Similarity=0.149  Sum_probs=36.3

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .-..++|.+...+.+...+..   +....++|+|++|+|||+||+.+++.+.
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~---~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVD---PGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHC---GGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CchhccChHHHHHHHHHHhhC---CCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            334699999876665544432   2234599999999999999999998764

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.83  E-value=0.0012  Score=55.06  Aligned_cols=27  Identities=19%  Similarity=0.309  Sum_probs=23.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..|+|.|++|+||||+++.+.+.+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   30 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKE   30 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            579999999999999999999887643

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.83  E-value=0.0007  Score=55.87  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .+|+|.|++|+||||+++.+.+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>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=96.83  E-value=0.0015  Score=58.58  Aligned_cols=29  Identities=14%  Similarity=0.103  Sum_probs=25.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+..+|+|.|++|+|||||++.+...+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            56789999999999999999999988654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.82  E-value=0.00079  Score=56.82  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....|+|.|++|+||||+++.+++.+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            44689999999999999999999886

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.81  E-value=0.0014  Score=54.55  Aligned_cols=37  Identities=19%  Similarity=0.121  Sum_probs=28.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .....++|.|++|+||||+++.++..+......+.++
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~   47 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVL   47 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            3557899999999999999999999876543333444

>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=96.80  E-value=0.00085  Score=56.09  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....|+|.|++|+||||+++.+.+.+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998876

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.80  E-value=0.00069  Score=57.66  Aligned_cols=29  Identities=24%  Similarity=0.288  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ....+++|.||+|+|||||++.++..+..
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            35578999999999999999999987643

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.79  E-value=0.00078  Score=55.89  Aligned_cols=26  Identities=27%  Similarity=0.426  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++++|.||+|+|||||++.+.....
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            46899999999999999999988754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.79  E-value=0.0015  Score=58.62  Aligned_cols=28  Identities=25%  Similarity=0.361  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|++|+||||+++.+...+.
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~~   58 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEETQ   58 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4567899999999999999999987753

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.77  E-value=0.00085  Score=55.76  Aligned_cols=25  Identities=20%  Similarity=0.344  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.|+|+|++|+||||+++.+++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999876

>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=96.77  E-value=0.003  Score=58.31  Aligned_cols=81  Identities=15%  Similarity=0.172  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHHHHhccccc------cccCcccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           26 SKLIEEIVSEVLERLDDTF------ETENKLVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        26 ~~~i~~~~~~~~~~l~~~~------~~~~~fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+-++....++..+...-.      ......-+-..-+..|-..|. +.- +..+++.|.|++|+||||||.+++.....
T Consensus        11 ~~~l~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl-~~G~ii~I~G~pGsGKTtLal~la~~~~~   89 (356)
T 1u94_A           11 QKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGL-PMGRIVEIYGPESSGKTTLTLQVIAAAQR   89 (356)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTCCCBCCCCEECCSCHHHHHHTSSSSE-ETTSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCCCceEccccccccCCcccCCCHHHHHHhccCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3456666666666543321      111223333444556666665 333 56689999999999999999999988665


Q ss_pred             cCcceEEEe
Q 015918           99 RFEGSYFAH  107 (398)
Q Consensus        99 ~f~~~~~~~  107 (398)
                      ....++|+.
T Consensus        90 ~g~~vlyid   98 (356)
T 1u94_A           90 EGKTCAFID   98 (356)
T ss_dssp             TTCCEEEEE
T ss_pred             CCCeEEEEe
Confidence            555677776

>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=96.76  E-value=0.0028  Score=58.42  Aligned_cols=80  Identities=18%  Similarity=0.149  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHhccccc------cccCcccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           27 KLIEEIVSEVLERLDDTF------ETENKLVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        27 ~~i~~~~~~~~~~l~~~~------~~~~~fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +.++....++..+...-.      ......-+-..-+..|-..|. +.- +...++.|.|++|+||||||.+++......
T Consensus        10 ~~~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl-~~G~iv~I~G~pGsGKTtLal~la~~~~~~   88 (349)
T 2zr9_A           10 KALELAMAQIDKNFGKGSVMRLGEEVRQPISVIPTGSISLDVALGIGGL-PRGRVIEIYGPESSGKTTVALHAVANAQAA   88 (349)
T ss_dssp             HHHHHHHHHHHHHHCTTSSCCTTCCCCCCCCEECCSCHHHHHHTSSSSE-ETTSEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhCCCCceeccccccccCCccccCCHHHHHHhccCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            445566666655543221      111222333444556666665 333 567899999999999999999999876655


Q ss_pred             CcceEEEe
Q 015918          100 FEGSYFAH  107 (398)
Q Consensus       100 f~~~~~~~  107 (398)
                      -..+.|+.
T Consensus        89 g~~vlyi~   96 (349)
T 2zr9_A           89 GGIAAFID   96 (349)
T ss_dssp             TCCEEEEE
T ss_pred             CCeEEEEE
Confidence            55677776

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.75  E-value=0.0082  Score=57.62  Aligned_cols=49  Identities=16%  Similarity=0.222  Sum_probs=33.2

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc-ceEEEe
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE-GSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~~~~~~  107 (398)
                      ..+..+...+...    .+.++|.|++|+||||++..++..+..... .+..+.
T Consensus        32 ~av~~~~~~i~~~----~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a   81 (459)
T 3upu_A           32 NAFNIVMKAIKEK----KHHVTINGPAGTGATTLTKFIIEALISTGETGIILAA   81 (459)
T ss_dssp             HHHHHHHHHHHSS----SCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             HHHHHHHHHHhcC----CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEec
Confidence            3344444445432    248999999999999999999988765544 344443

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.74  E-value=0.0069  Score=57.89  Aligned_cols=70  Identities=20%  Similarity=0.097  Sum_probs=43.8

Q ss_pred             ccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEeechhhhhcCCHHHHHHHHHH
Q 015918           50 LVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAHNVREAEETGKLADLRKELLS  127 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (398)
                      ..|-..-+..|-..+ ++- ....+++|.|++|+|||||+.+++...... -..+.|++    .  ..+..++...+..
T Consensus       180 ~~~i~tG~~~LD~~l-gGl-~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s----l--E~~~~~l~~R~~~  250 (444)
T 2q6t_A          180 VAGVRTGFKELDQLI-GTL-GPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS----L--EMPAAQLTLRMMC  250 (444)
T ss_dssp             ---CCCSCHHHHHHH-CCC-CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE----S--SSCHHHHHHHHHH
T ss_pred             CCcccCCCHhhhhhc-CCc-CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE----C--CCCHHHHHHHHHH
Confidence            334444455565555 333 556799999999999999999999886542 33466665    1  2344555555443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.73  E-value=0.0034  Score=60.26  Aligned_cols=55  Identities=18%  Similarity=0.179  Sum_probs=37.4

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEEe
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~~  107 (398)
                      .|-..-+..|-..+. +- ....+++|.|++|+|||||+.+++..... ....+.|++
T Consensus       184 ~~i~tG~~~LD~~~g-Gl-~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          184 TGIPTGFTELDRMTS-GF-QRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             CSBCCSCHHHHHHHS-SB-CTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCCCCcHHHHhhcC-CC-CCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            333344445555552 22 45679999999999999999999988654 233466665

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=96.73  E-value=0.009  Score=58.93  Aligned_cols=36  Identities=14%  Similarity=-0.047  Sum_probs=28.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .++++|+|++|+||||++..+...+......+....
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~A  239 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCA  239 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            368999999999999999999988766554455443

>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=96.72  E-value=0.00092  Score=55.84  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|++|+|||||++.++..
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34578999999999999999999865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.70  E-value=0.0016  Score=56.68  Aligned_cols=38  Identities=18%  Similarity=0.132  Sum_probs=30.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++.|.|++|+|||||+.+++......-..++|+.
T Consensus        21 ~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           21 PERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            45578999999999999999999887655545567765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.70  E-value=0.00091  Score=54.86  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..++|+|++|+||||+++.++..+.
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            5799999999999999999988753

>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=96.70  E-value=0.00092  Score=54.74  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+|+|.|++|+||||+++.+ +.
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~   23 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KE   23 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HH
Confidence            47899999999999999999 44

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.70  E-value=0.00098  Score=56.33  Aligned_cols=25  Identities=20%  Similarity=0.408  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+|+|.|++|+||||+++.++..+
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            4689999999999999999998876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.67  E-value=0.0013  Score=56.59  Aligned_cols=38  Identities=21%  Similarity=0.208  Sum_probs=29.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....+++|.|++|+|||||++.++......-..+.|+.
T Consensus        21 ~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           21 PQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            34578999999999999999999977554434456654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.67  E-value=0.00094  Score=56.11  Aligned_cols=27  Identities=30%  Similarity=0.455  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +.++++|.||+|+|||||++.++....
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            457899999999999999999997754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.67  E-value=0.001  Score=56.36  Aligned_cols=28  Identities=25%  Similarity=0.342  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...++++|.|++|+||||+++.+...+.
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            3557899999999999999999988764

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.67  E-value=0.0044  Score=52.17  Aligned_cols=23  Identities=26%  Similarity=0.157  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -+.+|+|++|+|||++|......
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            47789999999999999886554

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.66  E-value=0.002  Score=54.64  Aligned_cols=29  Identities=24%  Similarity=0.242  Sum_probs=24.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ...|+|.|++|+||||+++.+.+.+....
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g   32 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELKR   32 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhcC
Confidence            36899999999999999999999876543

>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=96.66  E-value=0.0011  Score=54.78  Aligned_cols=26  Identities=31%  Similarity=0.295  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+.|+|+|++|+||||+++.+++.+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            34678999999999999999998876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.65  E-value=0.002  Score=58.58  Aligned_cols=48  Identities=17%  Similarity=0.112  Sum_probs=36.2

Q ss_pred             ccccchhHHHHHHHhccC-CCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           50 LVGVDSRIEEILSLLGVG-LTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        50 fvGR~~el~~l~~~L~~~-~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++|....+..+...+... ....+.+++|.|++|+|||||++.+...+.
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            566666777666655433 225667999999999999999999987765

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.64  E-value=0.0013  Score=55.57  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|++|+|||||++.++..+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999998876

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.64  E-value=0.0034  Score=59.93  Aligned_cols=55  Identities=22%  Similarity=0.090  Sum_probs=39.0

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-..-+..|-..+. +- ....+++|.|++|+|||||+.+++.....+...+.|++
T Consensus       178 ~gi~TG~~~LD~~lg-Gl-~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          178 TGVPSGFTELDRMTY-GY-KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CSBCCSCHHHHHHHS-SB-CSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             CCcCCCcHHHHhhcC-CC-CCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            344444555555553 22 45679999999999999999999988665544566665

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.62  E-value=0.0019  Score=54.89  Aligned_cols=30  Identities=10%  Similarity=0.136  Sum_probs=25.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +...|+|.|++|+||||+++.+.+.+...+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~   37 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCAAG   37 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            356899999999999999999998876543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.62  E-value=0.0014  Score=54.84  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +..|+|.|++|+||||+++.+++.+
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            4679999999999999999998775

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.61  E-value=0.0013  Score=55.53  Aligned_cols=26  Identities=23%  Similarity=0.293  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.||+|+|||||++.++...
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.60  E-value=0.0015  Score=54.24  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...|+|.|++|+||||+++.+++.+
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            4579999999999999999998775

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.59  E-value=0.0014  Score=54.94  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +...|+|.|++|+||||+++.+++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998875

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.59  E-value=0.0067  Score=57.42  Aligned_cols=37  Identities=22%  Similarity=0.147  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.+++++|++|+||||++..++..+..+...+..+.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~  135 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVC  135 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            4689999999999999999999998776654444443

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.59  E-value=0.0067  Score=55.31  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+..+++|.|+.|+||||+++.++..+...-..+.+.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~  163 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIA  163 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEE
Confidence            3568999999999999999999998765544334443

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.59  E-value=0.0024  Score=52.13  Aligned_cols=29  Identities=17%  Similarity=0.212  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..+++.|.|++|+|||||+..++..+..+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            35689999999999999999999987655

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.57  E-value=0.0014  Score=57.55  Aligned_cols=25  Identities=24%  Similarity=0.138  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++++|.|++|+||||||+.++..+.
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            4789999999999999999998753

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.56  E-value=0.0018  Score=53.26  Aligned_cols=26  Identities=27%  Similarity=0.471  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|+|++|+||||+++.++..+
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999998765

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.56  E-value=0.0016  Score=54.20  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...|+|+|++|+||||+++.+.+.
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            34568999999999999999999876

>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=96.55  E-value=0.0077  Score=57.28  Aligned_cols=29  Identities=31%  Similarity=0.603  Sum_probs=24.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .+.++|+|++|+|||||+..++.....++
T Consensus       151 Gq~~~i~G~sGvGKTtL~~~l~~~~~~~~  179 (473)
T 1sky_E          151 GGKIGLFGGAGVGKTVLIQELIHNIAQEH  179 (473)
T ss_dssp             TCEEEEECCSSSCHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCccHHHHHHHhhhhhcc
Confidence            34688999999999999999998765443

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.52  E-value=0.0016  Score=55.00  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|++|+||||+++.+...+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            44689999999999999999998775

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.51  E-value=0.0013  Score=54.08  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|.|++|+||||+++.+++.+.
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            588999999999999999998763

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.51  E-value=0.0077  Score=54.74  Aligned_cols=38  Identities=16%  Similarity=0.064  Sum_probs=30.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....+++|+|++|+||||++..++..+...-..+.++.
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid  140 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAA  140 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            45679999999999999999999988776544455443

>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=96.51  E-value=0.0026  Score=55.17  Aligned_cols=48  Identities=19%  Similarity=0.158  Sum_probs=33.3

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~  107 (398)
                      .|-..|.+.- +...++.|.|++|+|||||+..++.....      ....++|+.
T Consensus        12 ~LD~~l~ggi-~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~   65 (243)
T 1n0w_A           12 ELDKLLQGGI-ETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYID   65 (243)
T ss_dssp             HHHHHTTTSE-ETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEE
T ss_pred             HHHHhhcCCC-cCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEE
Confidence            3444453332 45679999999999999999999986322      134566765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.50  E-value=0.0018  Score=52.86  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.|+|.|++|+||||+++.+.+.+.
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            46899999999999999999988764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.49  E-value=0.0022  Score=56.32  Aligned_cols=28  Identities=21%  Similarity=0.216  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .....++|.|++|+||||+++.+...+.
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4567899999999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.49  E-value=0.0014  Score=54.31  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++|+|+|++|+||||+++.+.+.+.
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            4689999999999999999998753

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.49  E-value=0.0019  Score=54.45  Aligned_cols=27  Identities=15%  Similarity=0.153  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....|+|.|++|+||||+++.+++.+
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            455789999999999999999998764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.48  E-value=0.0013  Score=55.39  Aligned_cols=26  Identities=23%  Similarity=0.370  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.++|.||+|+|||||++.++....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            46789999999999999999987654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.47  E-value=0.002  Score=54.37  Aligned_cols=27  Identities=22%  Similarity=0.238  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....|+|+|++|+||||+++.+.+.+
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            344589999999999999999998876

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.47  E-value=0.0032  Score=55.26  Aligned_cols=35  Identities=23%  Similarity=0.229  Sum_probs=26.8

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +..|+.... ++...++++||+|+|||.||..+++.
T Consensus        93 l~~~l~~~~-~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           93 FLGWATKKF-GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHTTCS-TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHhCCC-CCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            444554432 44567999999999999999999886

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.47  E-value=0.0011  Score=54.91  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...|+|.|++|+||||+++.+.+.+.
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            45899999999999999999987754

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.46  E-value=0.0017  Score=54.51  Aligned_cols=26  Identities=23%  Similarity=0.161  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...|+|.|++|+||||+++.+++.+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999998763

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.45  E-value=0.003  Score=54.26  Aligned_cols=27  Identities=22%  Similarity=0.276  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|++|+|||||++.++...
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999753

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.45  E-value=0.0029  Score=55.80  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +...|+|.|++|+||||+++.+...+.
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            346899999999999999999998864

>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=96.44  E-value=0.009  Score=54.41  Aligned_cols=39  Identities=31%  Similarity=0.325  Sum_probs=29.9

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +..|-..|.+.- +...++.|+|++|+|||+||.+++...
T Consensus        84 ~~~LD~~l~GGl-~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           84 SSELDSVLGGGL-ESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             CHHHHHHTTSSE-ETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             ChhHHHhcCCCc-cCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555554333 566899999999999999999999763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.44  E-value=0.0019  Score=54.81  Aligned_cols=29  Identities=10%  Similarity=0.112  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ....|+|.|++|+||||+++.+.+.+...
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            45689999999999999999999886544

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.42  E-value=0.0022  Score=53.42  Aligned_cols=26  Identities=15%  Similarity=0.165  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+|+|.|++|+||||+++.+.+.+
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998875

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.42  E-value=0.0018  Score=53.08  Aligned_cols=25  Identities=16%  Similarity=0.248  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..|+|+|++|+||||+++.+.+.+.
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            4689999999999999999988753

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.41  E-value=0.0022  Score=54.45  Aligned_cols=28  Identities=29%  Similarity=0.338  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|+.|+|||||++.++..+.
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457899999999999999999988764

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=96.40  E-value=0.0092  Score=50.48  Aligned_cols=111  Identities=14%  Similarity=0.037  Sum_probs=54.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      .+..+.+++|+-|+||||.+...+++.......+..+....+  ......    .+...++.........+ . ..+...
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d--~R~ge~----~i~s~~g~~~~a~~~~~-~-~~~~~~   97 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCID--NRYSEE----DVVSHNGLKVKAVPVSA-S-KDIFKH   97 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------------CCEEECSS-G-GGGGGG
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccC--CcchHH----HHHhhcCCeeEEeecCC-H-HHHHHH
Confidence            345788899999999999999999886655544555441111  111111    22222211111000000 1 112222


Q ss_pred             hCCceEEEEEeCCC--ChHhHHHHHccCCCCCCCcEEEEEeCCh
Q 015918          150 LTRKKVLIVFDDVN--HPRQIEFLIGNLDWFASGSRILITARDK  191 (398)
Q Consensus       150 l~~~~~LlvlDd~~--~~~~~~~l~~~l~~~~~~~~iliTsR~~  191 (398)
                      ..++--+|+||++.  +.+.++.+.. +.  ..+..||++.++.
T Consensus        98 ~~~~~dvViIDEaQF~~~~~V~~l~~-l~--~~~~~Vi~~Gl~~  138 (214)
T 2j9r_A           98 ITEEMDVIAIDEVQFFDGDIVEVVQV-LA--NRGYRVIVAGLDQ  138 (214)
T ss_dssp             CCSSCCEEEECCGGGSCTTHHHHHHH-HH--HTTCEEEEEECSB
T ss_pred             HhcCCCEEEEECcccCCHHHHHHHHH-Hh--hCCCEEEEEeccc
Confidence            23333499999985  3344533332 21  2377899999853

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.40  E-value=0.0021  Score=54.13  Aligned_cols=24  Identities=33%  Similarity=0.635  Sum_probs=21.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|.|++|+||||+++.+++.+.
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            588999999999999999998864

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.38  E-value=0.0081  Score=56.79  Aligned_cols=37  Identities=22%  Similarity=0.151  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.+++++|++|+||||++..++..+..+-..+..+.
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~  132 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVA  132 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4689999999999999999999988776654454443

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.38  E-value=0.0022  Score=56.02  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +...++|.|++|+|||||++.+++.+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999999775

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.38  E-value=0.0024  Score=52.86  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .++|.|++|+|||||++.++..+.
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            578999999999999999998764

>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=96.38  E-value=0.0016  Score=60.17  Aligned_cols=31  Identities=16%  Similarity=-0.022  Sum_probs=25.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .+.+.++|.|++|+|||||+..+++.+.++.
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~  202 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH  202 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHHHHHC
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHHhhcC
Confidence            4557899999999999999999998765543

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.36  E-value=0.0022  Score=53.44  Aligned_cols=22  Identities=27%  Similarity=0.252  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .+++|.|++|+|||||++.++.
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            5789999999999999999976

>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=96.36  E-value=0.009  Score=55.60  Aligned_cols=108  Identities=11%  Similarity=0.088  Sum_probs=57.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE-EEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY-FAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSK  148 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~  148 (398)
                      .....++|+|+.|+|||||++.++..+.......+ ++.....    .....   .+  .+................+..
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e----~~~~~---~~--~~v~Q~~~g~~~~~~~~~l~~  204 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIE----YVFKH---KK--SIVNQREVGEDTKSFADALRA  204 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCC----SCCCC---SS--SEEEEEEBTTTBSCSHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHh----hhhcc---Cc--eEEEeeecCCCHHHHHHHHHH
Confidence            45578999999999999999999987654322233 3321000    00000   00  000000000011124556666


Q ss_pred             hhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeC
Q 015918          149 RLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITAR  189 (398)
Q Consensus       149 ~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR  189 (398)
                      .+...|-+|++|+..+.+.........   ..+..++.|+-
T Consensus       205 ~L~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H  242 (372)
T 2ewv_A          205 ALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLH  242 (372)
T ss_dssp             HTTSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCC
T ss_pred             HhhhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEEC
Confidence            777778899999997666554443332   23444555553

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.35  E-value=0.0038  Score=56.34  Aligned_cols=35  Identities=20%  Similarity=0.172  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      +..+++|.|++|+|||||++.++..+...-..+.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l  135 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMF  135 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEE
Confidence            45799999999999999999999886654333333

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.34  E-value=0.0026  Score=54.69  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+|+|+|++|+||||+++.+...+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998765

>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=96.34  E-value=0.0067  Score=55.34  Aligned_cols=50  Identities=16%  Similarity=0.198  Sum_probs=35.3

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~  107 (398)
                      +..|-..|.+.- +...++.|+|++|+|||+||.+++......      -..++|+.
T Consensus        93 ~~~LD~~L~GGl-~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~  148 (324)
T 2z43_A           93 SQALDGLLAGGI-ETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYID  148 (324)
T ss_dssp             CHHHHHHTTTSE-ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             chhHHHhcCCCC-CCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            344555554333 456799999999999999999999875332      34567776

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=96.33  E-value=0.0026  Score=60.29  Aligned_cols=52  Identities=19%  Similarity=0.205  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHhccC----------C-CCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           48 NKLVGVDSRIEEILSLLGVG----------L-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~----------~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++|.+...+.+...+...          . ....+.++++||+|+|||++|+.++..+...
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            45788888777776655211          0 0134569999999999999999999886443

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.33  E-value=0.0023  Score=54.84  Aligned_cols=28  Identities=14%  Similarity=0.184  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +...+++|.||+|+|||||++.++....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            4557899999999999999999988754

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.32  E-value=0.0022  Score=55.09  Aligned_cols=27  Identities=26%  Similarity=0.212  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....|+|.|++|+||||+++.+++.+.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            446799999999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.31  E-value=0.0017  Score=53.26  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=19.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAF   92 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~   92 (398)
                      ...+++|.|++|+|||||++.+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4568999999999999999963

>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=96.30  E-value=0.011  Score=55.80  Aligned_cols=27  Identities=15%  Similarity=0.178  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+|+|+|++|+||||+++.+++.+
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            456889999999999999999988654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.30  E-value=0.0026  Score=54.28  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+++.+++.+
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            47899999999999999998775

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.29  E-value=0.0027  Score=54.36  Aligned_cols=27  Identities=19%  Similarity=0.327  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +...|+|.|++|+||||+++.+++.+.
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            345799999999999999999988763

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.28  E-value=0.0027  Score=52.96  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .|+|.|++|+||||+++.+.+.+..
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            6889999999999999999988743

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.27  E-value=0.0028  Score=55.60  Aligned_cols=28  Identities=14%  Similarity=0.294  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+..+|+|.|++|+||||+++.+...+.
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            4567899999999999999999988754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.27  E-value=0.0029  Score=51.52  Aligned_cols=24  Identities=13%  Similarity=0.295  Sum_probs=21.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|+|+|++|+||||+++.+.+.+.
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            588999999999999999988763

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.26  E-value=0.0022  Score=55.20  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +...|+|.|++|+||||+++.+++.+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999998765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.25  E-value=0.0046  Score=61.56  Aligned_cols=50  Identities=16%  Similarity=0.234  Sum_probs=41.2

Q ss_pred             ccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           46 TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .-..++|.+..++.+...+...     ..++|+|++|+||||||+.++..+....
T Consensus        39 ~l~~i~G~~~~l~~l~~~i~~g-----~~vll~Gp~GtGKTtlar~ia~~l~~~~   88 (604)
T 3k1j_A           39 LIDQVIGQEHAVEVIKTAANQK-----RHVLLIGEPGTGKSMLGQAMAELLPTET   88 (604)
T ss_dssp             HHHHCCSCHHHHHHHHHHHHTT-----CCEEEECCTTSSHHHHHHHHHHTSCCSS
T ss_pred             ccceEECchhhHhhccccccCC-----CEEEEEeCCCCCHHHHHHHHhccCCccc
Confidence            3456899999999998888643     4889999999999999999998765443

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.25  E-value=0.0028  Score=53.33  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++..+|+|+|++|+||||+++.+.+.
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45678999999999999999999875

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.24  E-value=0.009  Score=55.24  Aligned_cols=49  Identities=22%  Similarity=0.223  Sum_probs=34.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+.+...+.... ++..+|+|+|.+|+|||||+..++..+......+..+
T Consensus        65 ~~~~~~~~~~~~-~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi  113 (355)
T 3p32_A           65 AQQLLLRLLPDS-GNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVL  113 (355)
T ss_dssp             HHHHHHHHGGGC-CCSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             HHHHHHHhHhhc-CCceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEE
Confidence            444455444333 5678999999999999999999998875544434443

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.23  E-value=0.0028  Score=53.40  Aligned_cols=25  Identities=20%  Similarity=0.209  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...|+|.|++|+||||+++.+.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.23  E-value=0.0024  Score=54.70  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.||+|+|||||++.++...
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            345689999999999999999998765

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.19  E-value=0.003  Score=53.53  Aligned_cols=26  Identities=31%  Similarity=0.432  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|+|++|+||||+++.+...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            45578999999999999999998764

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.19  E-value=0.0059  Score=50.19  Aligned_cols=29  Identities=21%  Similarity=0.252  Sum_probs=24.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++++|.|++|+|||||+..+...+...
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~l~~~   33 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPALCAR   33 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHhcccc
Confidence            35789999999999999999999886543

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.17  E-value=0.003  Score=53.60  Aligned_cols=28  Identities=18%  Similarity=0.221  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.||+|+|||||++.++..+.
T Consensus        18 ~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           18 AVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4556899999999999999999987753

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.17  E-value=0.0039  Score=53.04  Aligned_cols=28  Identities=14%  Similarity=0.223  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|++|+||||+++.+...+.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999998865

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.17  E-value=0.0022  Score=54.57  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=22.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +|+|.|++|+||||+++.+.+.+..
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            6899999999999999999988754

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.17  E-value=0.0031  Score=53.74  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|+|++|+||||+++.+++.+
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            47899999999999999998764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.15  E-value=0.0054  Score=55.33  Aligned_cols=30  Identities=23%  Similarity=0.376  Sum_probs=25.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ....+++|.|+.|+||||+++.++..+...
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag~l~~~  127 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAHRLKNE  127 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            345799999999999999999999886544

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.13  E-value=0.0067  Score=49.97  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +...++|+|++|+||||+++.+...+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4568899999999999999999987643

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.13  E-value=0.0029  Score=53.35  Aligned_cols=21  Identities=33%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .|+|+|++|+||||+++.++.
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

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.12  E-value=0.0073  Score=56.63  Aligned_cols=50  Identities=14%  Similarity=0.164  Sum_probs=34.2

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc------cCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR------RFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~------~f~~~~~~~  107 (398)
                      +..|-..|.+.- ....++.|.|++|+|||||+.+++-....      ....++|+.
T Consensus       164 ~~~LD~lLgGGI-~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid  219 (400)
T 3lda_A          164 SKNLDTLLGGGV-ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYID  219 (400)
T ss_dssp             CHHHHHHTTTSE-ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEE
T ss_pred             ChhHHHHhcCCc-CCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEe
Confidence            445555554433 56679999999999999999988754322      223467765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.11  E-value=0.0042  Score=54.17  Aligned_cols=27  Identities=19%  Similarity=0.356  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|+.|+|||||++.++..+
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            455789999999999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.09  E-value=0.0038  Score=54.78  Aligned_cols=26  Identities=19%  Similarity=0.251  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+|+|.|++|+||||+++.+++.+
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            44689999999999999999999775

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.09  E-value=0.006  Score=53.79  Aligned_cols=111  Identities=11%  Similarity=0.085  Sum_probs=56.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKR  149 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  149 (398)
                      ....+++|+||.|+|||||++.++..+...+...+++.... ..  ......     ..+................+...
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~-i~--~~~~~~-----~~~v~q~~~gl~~~~l~~~la~a   94 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDP-IE--YVFKHK-----KSIVNQREVGEDTKSFADALRAA   94 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESS-CC--SCCCCS-----SSEEEEEEBTTTBSCHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCc-ce--eecCCc-----ceeeeHHHhCCCHHHHHHHHHHH
Confidence            45579999999999999999999987654323334332100 00  000000     00000000000001123445555


Q ss_pred             hCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCCh
Q 015918          150 LTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDK  191 (398)
Q Consensus       150 l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~~  191 (398)
                      +...|-+|++|+..+.+....+....   ..+..|++|+-..
T Consensus        95 L~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~  133 (261)
T 2eyu_A           95 LREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTN  133 (261)
T ss_dssp             HHHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCS
T ss_pred             HhhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcc
Confidence            55567799999997655544433322   2355567666543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.08  E-value=0.0054  Score=68.06  Aligned_cols=48  Identities=23%  Similarity=0.225  Sum_probs=37.2

Q ss_pred             HHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           59 EILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-..|. +.- .+.+.+.|+||+|+|||+||.+++.....+-..+.|+.
T Consensus      1414 ~LD~lLG~GGi-~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~ 1462 (2050)
T 3cmu_A         1414 SLDIALGAGGL-PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1462 (2050)
T ss_dssp             HHHHHHSSSSE-ETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             HHHHhcCCCCc-cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            4555554 322 56789999999999999999999988776666777876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.08  E-value=0.0044  Score=50.10  Aligned_cols=27  Identities=22%  Similarity=0.263  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|+.|+|||||++.++..+
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            345689999999999999999999876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.07  E-value=0.0071  Score=51.58  Aligned_cols=30  Identities=27%  Similarity=0.350  Sum_probs=25.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .+.+.++|.|.+|+|||||+..++......
T Consensus        28 ~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           28 SGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            356789999999999999999999886544

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.06  E-value=0.0035  Score=54.53  Aligned_cols=38  Identities=26%  Similarity=0.264  Sum_probs=28.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH-hhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK-ISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~-~~~~f~~~~~~~  107 (398)
                      +...++.|.|++|+|||+||.+++.. ..+....+.|++
T Consensus        28 ~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           28 PEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            45679999999999999999998866 333334455654

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.06  E-value=0.0094  Score=51.41  Aligned_cols=28  Identities=18%  Similarity=0.367  Sum_probs=25.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ....|+|.|++|+||||+++.+.+.+..
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            5578999999999999999999998765

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.05  E-value=0.0062  Score=54.73  Aligned_cols=38  Identities=11%  Similarity=-0.016  Sum_probs=29.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCc-ceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE-GSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~~~~~~  107 (398)
                      ....+++|.|++|+|||||++.++..+..... .+.|+.
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            45579999999999999999999988654422 455654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.05  E-value=0.008  Score=51.45  Aligned_cols=30  Identities=17%  Similarity=0.323  Sum_probs=25.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .....++|.|.+|+|||||+..++......
T Consensus        36 ~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           36 HGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            356788899999999999999999875444

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.05  E-value=0.029  Score=53.13  Aligned_cols=37  Identities=16%  Similarity=0.201  Sum_probs=29.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ++++|.++|++|+||||++..++..+..+ ...+..+.
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd  136 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVS  136 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEe
Confidence            46789999999999999999999998766 44444443

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.05  E-value=0.0046  Score=56.02  Aligned_cols=28  Identities=21%  Similarity=0.255  Sum_probs=25.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|++|+|||||++.++..+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            5668999999999999999999988765

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.04  E-value=0.0038  Score=56.12  Aligned_cols=25  Identities=24%  Similarity=0.258  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++++|.||+|+|||||+..+++.+
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            4689999999999999999998765

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.03  E-value=0.0038  Score=52.76  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .+++|.|++|+||||+++.+..
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            4789999999999999999975

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.03  E-value=0.012  Score=53.22  Aligned_cols=28  Identities=25%  Similarity=0.207  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....+++|.|+.|+|||||++.+...+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4557999999999999999999988765

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.03  E-value=0.0057  Score=56.01  Aligned_cols=46  Identities=22%  Similarity=0.299  Sum_probs=30.8

Q ss_pred             chhHHHHHHHhccCC-CCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           54 DSRIEEILSLLGVGL-TMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        54 ~~el~~l~~~L~~~~-~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +...+.+.+.+.... .+....++|.|++|+||||+++.++..+.-.
T Consensus         5 ~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~   51 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEK   51 (359)
T ss_dssp             HHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            334444545443211 1345668999999999999999999876544

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.99  E-value=0.0045  Score=53.41  Aligned_cols=26  Identities=15%  Similarity=0.357  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|++|+||||+++.+++.+
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999998876

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.99  E-value=0.014  Score=49.72  Aligned_cols=30  Identities=17%  Similarity=0.165  Sum_probs=26.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +...|+|.|+.|+||||+++.+.+.+....
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~   34 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLRERG   34 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHTTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            356899999999999999999999887653

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.99  E-value=0.012  Score=56.38  Aligned_cols=36  Identities=19%  Similarity=0.320  Sum_probs=28.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      ....+++|.|+.|+|||||++.++..+......+.+
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l  326 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVML  326 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEE
Confidence            456799999999999999999999887654333333

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.97  E-value=0.0074  Score=53.74  Aligned_cols=29  Identities=21%  Similarity=0.266  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ....++.|.|++|+|||||+.+++..+..
T Consensus        28 ~~G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A           28 VAGTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            45579999999999999999999986554

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.97  E-value=0.0052  Score=55.15  Aligned_cols=27  Identities=22%  Similarity=0.105  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...++++|.||+|+|||||+..+++.+
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHHhC
Confidence            345789999999999999999998774

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.95  E-value=0.0081  Score=54.00  Aligned_cols=38  Identities=16%  Similarity=0.220  Sum_probs=29.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~~  107 (398)
                      .+..+++|+|++|+||||++..++..+.. ....+.++.
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~  141 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFIT  141 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEe
Confidence            34679999999999999999999988763 333444444

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.94  E-value=0.0074  Score=55.66  Aligned_cols=29  Identities=24%  Similarity=0.408  Sum_probs=25.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...+++|.|+.|+||||+++.++..+...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~  184 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE  184 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhcccc
Confidence            56799999999999999999999886644

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.94  E-value=0.14  Score=43.95  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.++|.|+.|+||||++..++-.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~   99 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILD   99 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhc
Confidence            57899999999999877766543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.93  E-value=0.0053  Score=52.40  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ..+|+|.|++|+||||+++.+..
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            46899999999999999999975

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=95.93  E-value=0.022  Score=65.30  Aligned_cols=137  Identities=12%  Similarity=0.008  Sum_probs=69.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR  152 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  152 (398)
                      +.++++||+|+|||++|+.+..... .+. ...+.    .+...+...+...+-..+.....  .......    ..-.+
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~-~~~-~~~in----fsa~ts~~~~~~~i~~~~~~~~~--~~g~~~~----P~~~g 1335 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSS-LYD-VVGIN----FSKDTTTEHILSALHRHTNYVTT--SKGLTLL----PKSDI 1335 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCS-SCE-EEEEE----CCTTCCHHHHHHHHHHHBCCEEE--TTTEEEE----EBSSS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCC-CCc-eEEEE----eecCCCHHHHHHHHHHHhhhccc--cCCcccc----CCCCC
Confidence            6788999999999999988876542 222 22333    22233333333333222211000  0000000    00145


Q ss_pred             ceEEEEEeCCCCh-----------HhHHHHHcc--CCCCC-------CCcEEEEEeCChh-------HHHhcCCCeeEEc
Q 015918          153 KKVLIVFDDVNHP-----------RQIEFLIGN--LDWFA-------SGSRILITARDKQ-------ALINCGVNKIYQI  205 (398)
Q Consensus       153 ~~~LlvlDd~~~~-----------~~~~~l~~~--l~~~~-------~~~~iliTsR~~~-------~~~~~~~~~~~~l  205 (398)
                      ++++++|||++-+           +.++.++..  +....       .+..+|.++..+.       .....+....+.+
T Consensus      1336 k~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i 1415 (2695)
T 4akg_A         1336 KNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYL 1415 (2695)
T ss_dssp             SCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEEC
T ss_pred             ceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEe
Confidence            7889999997421           112323221  00001       1234444443321       1122346678999


Q ss_pred             CCCChhhhHHHHHHhh
Q 015918          206 KELVHVDALKLLNQCA  221 (398)
Q Consensus       206 ~~L~~~e~~~Ll~~~~  221 (398)
                      +..+.++-..+|...+
T Consensus      1416 ~~P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1416 GYPSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CCCTTTHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999998887665

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.93  E-value=0.0049  Score=52.92  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=21.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+++.+.+.+
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            58899999999999999998876

>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=95.93  E-value=0.14  Score=44.10  Aligned_cols=48  Identities=21%  Similarity=0.039  Sum_probs=31.6

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      -=|....+.+..++..      +-++|+|+.|+|||.++..++....   ..+++++
T Consensus        93 ~l~~~Q~~ai~~~~~~------~~~ll~~~tG~GKT~~a~~~~~~~~---~~~liv~  140 (237)
T 2fz4_A           93 SLRDYQEKALERWLVD------KRGCIVLPTGSGKTHVAMAAINELS---TPTLIVV  140 (237)
T ss_dssp             CCCHHHHHHHHHHTTT------SEEEEEESSSTTHHHHHHHHHHHSC---SCEEEEE
T ss_pred             CcCHHHHHHHHHHHhC------CCEEEEeCCCCCHHHHHHHHHHHcC---CCEEEEe
Confidence            3345555555555532      2388999999999999998887652   2355554

>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=95.93  E-value=0.005  Score=51.56  Aligned_cols=27  Identities=22%  Similarity=0.344  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+|+|+|+.|+||||+++.+.+.+
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            345789999999999999999998764

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=95.92  E-value=0.03  Score=55.64  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.++|+|++|+||||++..+...+.
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l~  189 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAALI  189 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHHH
Confidence            36899999999999999999887765

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.92  E-value=0.0056  Score=52.95  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ....|+|.|++|+||||+++.+++.+.
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345799999999999999999998863

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.91  E-value=0.0033  Score=57.19  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++|+|.||.|+|||||+..+++.+
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            44689999999999999999998765

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.88  E-value=0.0037  Score=52.17  Aligned_cols=25  Identities=28%  Similarity=0.223  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.++|.|++|+||||||..++++.
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            4678999999999999999998763

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.87  E-value=0.005  Score=52.42  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=20.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+++.+++.+
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            47899999999999999998876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.87  E-value=0.0032  Score=54.37  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=16.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHH-HHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFF-SKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~-~~~   96 (398)
                      ...+++|.||.|+|||||++.++ ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            44689999999999999999998 654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.86  E-value=0.006  Score=55.24  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++++|+||+|+|||||+..+++.+
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999875

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.84  E-value=0.0054  Score=55.93  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+|+|.|++|+|||||+..++..+.
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            5899999999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.84  E-value=0.0089  Score=51.04  Aligned_cols=35  Identities=20%  Similarity=-0.063  Sum_probs=27.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      -.|++.|+||+||||++..++..+..+...+.++.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d   41 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGV   41 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEE
Confidence            34889999999999999999988766644454444

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.81  E-value=0.0054  Score=52.37  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..|+|.|++|+||||+++.+++.+
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            568899999999999999999876

>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=95.81  E-value=0.006  Score=51.46  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +|+|.|++|+||||+++.++..+.
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            899999999999999999988763

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.79  E-value=0.004  Score=55.87  Aligned_cols=27  Identities=15%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +..+|+|.|++|+||||+++.+.+.+.
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            456899999999999999999988764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.78  E-value=0.0057  Score=51.06  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +++|.|+.|+|||||++.++..+.
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            688999999999999999998765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.76  E-value=0.0054  Score=53.64  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...|+|.|++|+||||+++.++..+.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35799999999999999999998763

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.75  E-value=0.012  Score=54.12  Aligned_cols=37  Identities=27%  Similarity=0.380  Sum_probs=28.7

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|-..|...- +...++.|+|++|+|||||+.+++...
T Consensus       119 ~LD~lL~ggi-~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          119 SLDKLLGGGI-ETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             HHHHHHTSSE-ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHHhcCCC-CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444333 567899999999999999999999875

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.73  E-value=0.0058  Score=54.53  Aligned_cols=25  Identities=32%  Similarity=0.502  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +...+|+|+|++|+||||+++.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999983

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.73  E-value=0.0044  Score=50.83  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +++.|+|++|+|||||++.++..+...
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            578999999999999999999886543

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.73  E-value=0.015  Score=50.32  Aligned_cols=30  Identities=17%  Similarity=0.232  Sum_probs=25.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +...|+|.|++|+||||+++.+.+.+....
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~   55 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQQNG   55 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            457899999999999999999999876543

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.70  E-value=0.0066  Score=54.62  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+|+|.|++|+||||+++.+.+.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.70  E-value=0.0055  Score=53.11  Aligned_cols=26  Identities=19%  Similarity=0.203  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++.-
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            34568999999999999999988754

>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=95.69  E-value=0.012  Score=53.33  Aligned_cols=38  Identities=16%  Similarity=0.232  Sum_probs=31.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.++|.|+|-|||||||.+..++..+......+.-+.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllID   83 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQIG   83 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            57799999999999999999999999877665566554

>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=95.67  E-value=0.015  Score=52.25  Aligned_cols=36  Identities=19%  Similarity=0.172  Sum_probs=29.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..++++.|++|+||||++..++..+......+.++.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~  133 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVG  133 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            678999999999999999999988766544455554

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.64  E-value=0.0086  Score=49.71  Aligned_cols=26  Identities=19%  Similarity=0.110  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|++|+|||||+..++..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999999865

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.64  E-value=0.0069  Score=52.66  Aligned_cols=25  Identities=16%  Similarity=0.056  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .. .+++|.|+.|+|||||++.++.-
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            45 78999999999999999998864

>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=95.63  E-value=0.032  Score=52.94  Aligned_cols=37  Identities=30%  Similarity=0.458  Sum_probs=27.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~  106 (398)
                      .+.+.++|.|++|+|||+|+.++++..... .+..+|.
T Consensus       151 gkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~  188 (482)
T 2ck3_D          151 AKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA  188 (482)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEE
T ss_pred             ccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEE
Confidence            355778999999999999999999886433 2334443

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.63  E-value=0.011  Score=54.90  Aligned_cols=27  Identities=22%  Similarity=0.088  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +....++|+|++|+|||||++.++...
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            456799999999999999999999764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.60  E-value=0.019  Score=48.79  Aligned_cols=29  Identities=21%  Similarity=0.240  Sum_probs=25.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ...|++.|+.|+||||+++.+.+.+....
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~~~   31 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQLG   31 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            35899999999999999999999876553

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.59  E-value=0.0075  Score=54.26  Aligned_cols=27  Identities=15%  Similarity=0.222  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++...++|+|++|+|||||++.++.-+
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            456789999999999999999999765

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.56  E-value=0.022  Score=47.73  Aligned_cols=34  Identities=18%  Similarity=0.218  Sum_probs=28.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|+|-|+.|+||||.++.+.+.+..+...+++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4788999999999999999999877765555544

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.55  E-value=0.016  Score=50.87  Aligned_cols=36  Identities=22%  Similarity=0.295  Sum_probs=28.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+..++++.|.+|+||||++..++..+. ....+..+
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vv   47 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYV   47 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEE
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEE
Confidence            3567888999999999999999998877 43334333

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.53  E-value=0.0069  Score=52.55  Aligned_cols=27  Identities=19%  Similarity=0.421  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|+.|+|||||++.++.-.
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999988653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.53  E-value=0.015  Score=49.89  Aligned_cols=29  Identities=28%  Similarity=0.354  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +...|+|.|++|+||||+++.+.+.+...
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            45689999999999999999999987654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.52  E-value=0.02  Score=49.06  Aligned_cols=29  Identities=24%  Similarity=0.259  Sum_probs=25.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+...|+|.|+.|+||||+++.+.+.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            45678999999999999999999998765

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=95.51  E-value=0.0098  Score=56.41  Aligned_cols=37  Identities=24%  Similarity=0.219  Sum_probs=28.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+++|+|+|++|+||||++..++..+..+...+.++.
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~  134 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIA  134 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            3568999999999999999999988765544445543

>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=95.49  E-value=0.015  Score=52.18  Aligned_cols=37  Identities=19%  Similarity=0.148  Sum_probs=29.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+++|+|++|+||||++..++..+...-..+.++.
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~  133 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA  133 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            4578999999999999999999988765544444443

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=95.46  E-value=0.016  Score=49.02  Aligned_cols=29  Identities=17%  Similarity=0.457  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      +.|+|-|+.|+||||+++.+.+.+...++
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            57899999999999999999999876544

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.46  E-value=0.0058  Score=52.55  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4468999999999999999998754

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.43  E-value=0.036  Score=55.60  Aligned_cols=45  Identities=22%  Similarity=0.117  Sum_probs=30.6

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY  104 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~  104 (398)
                      ...+++...|..     ..+.+|+||||+|||+.+.++...+..+...+.
T Consensus       193 ~Q~~AV~~al~~-----~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~IL  237 (646)
T 4b3f_X          193 SQKEAVLFALSQ-----KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVL  237 (646)
T ss_dssp             HHHHHHHHHHHC-----SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEE
T ss_pred             HHHHHHHHHhcC-----CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEE
Confidence            345566666643     247899999999999887777766544443333

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.42  E-value=0.0095  Score=55.48  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++|+|.||+|+|||||+..++..+.
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            5889999999999999999998764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.42  E-value=0.0094  Score=51.74  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +..|+|.|+.|+||||+++.+++.+.
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            46899999999999999999998864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.42  E-value=0.0078  Score=53.08  Aligned_cols=26  Identities=19%  Similarity=0.161  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45568999999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.41  E-value=0.028  Score=51.46  Aligned_cols=37  Identities=24%  Similarity=0.256  Sum_probs=28.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+..+++|.|++|+|||||+..++..+......+.+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~   89 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVL   89 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEE
Confidence            5668999999999999999999997754433333333

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.40  E-value=0.0094  Score=48.47  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.++|.|++|+||||||..+..+
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            357889999999999999999985

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.39  E-value=0.021  Score=52.50  Aligned_cols=38  Identities=21%  Similarity=0.205  Sum_probs=31.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh--ccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS--RRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~--~~f~~~~~~~  107 (398)
                      ...+++++.|-||+||||++..++..+.  .....+..+.
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid   55 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLIS   55 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEE
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            4568999999999999999999999887  6655555555

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=95.38  E-value=0.021  Score=52.19  Aligned_cols=38  Identities=18%  Similarity=0.206  Sum_probs=31.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+++++.|-||+||||++..++..+.+....+..+.
T Consensus        14 ~~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid   51 (334)
T 3iqw_A           14 RSLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLS   51 (334)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEE
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEE
Confidence            45688999999999999999999999887766666665

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.37  E-value=0.0088  Score=52.10  Aligned_cols=26  Identities=19%  Similarity=0.163  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45578999999999999999998864

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.31  E-value=0.011  Score=52.38  Aligned_cols=26  Identities=19%  Similarity=0.303  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44568999999999999999999874

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.31  E-value=0.0068  Score=51.42  Aligned_cols=23  Identities=30%  Similarity=0.118  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+++|.|+.|+|||||++.++..
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            47899999999999999999865

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.30  E-value=0.009  Score=52.66  Aligned_cols=26  Identities=15%  Similarity=0.142  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            45568999999999999999998864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.29  E-value=0.013  Score=50.66  Aligned_cols=27  Identities=26%  Similarity=0.366  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .....|+|.|++|+||||+++.++..+
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999998765

>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=95.26  E-value=0.044  Score=53.14  Aligned_cols=38  Identities=5%  Similarity=-0.185  Sum_probs=31.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~~~  107 (398)
                      ....+++|.|++|+|||||+.+++.....+ -..+.|++
T Consensus       240 ~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          240 RGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             CTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             CCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            456789999999999999999999887654 44567765

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.25  E-value=0.0096  Score=52.42  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....+++|.|+.|+|||||++.++.-+
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            445689999999999999999988653

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.24  E-value=0.011  Score=51.70  Aligned_cols=25  Identities=16%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999999873

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.24  E-value=0.0089  Score=53.07  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.||.|+|||||++.++.-
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            4468999999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.24  E-value=0.0097  Score=52.75  Aligned_cols=26  Identities=19%  Similarity=0.230  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45568999999999999999998864

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.24  E-value=0.0081  Score=51.19  Aligned_cols=25  Identities=20%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4458899999999999999998764

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=95.23  E-value=0.018  Score=55.63  Aligned_cols=49  Identities=6%  Similarity=-0.053  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ....|.+-.+.+.+...... ....+|++.|++|+||||+++.+++++..
T Consensus       373 ~~f~rpeV~~vLr~~~~~~~-~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNPPRP-KQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTTSCHHHHHHHHHHSCCGG-GCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccccChhhHHHHHHhccccc-ccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34455555556666553222 34578999999999999999999999864

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.23  E-value=0.0097  Score=52.22  Aligned_cols=26  Identities=23%  Similarity=0.285  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34568999999999999999998864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.22  E-value=0.0084  Score=52.13  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999998864

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.21  E-value=0.0084  Score=52.37  Aligned_cols=25  Identities=24%  Similarity=0.322  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4468999999999999999998764

>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=95.20  E-value=0.036  Score=52.24  Aligned_cols=37  Identities=14%  Similarity=0.027  Sum_probs=28.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ....+++|+|+.|+|||||++.++..+...-..+.+.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~  201 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTV  201 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEE
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEe
Confidence            3456899999999999999999998865443334443

>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=95.19  E-value=0.0086  Score=51.63  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999988653

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.18  E-value=0.0086  Score=52.64  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999998764

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.16  E-value=0.017  Score=56.44  Aligned_cols=29  Identities=21%  Similarity=0.367  Sum_probs=25.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +..+++|.|++|+|||||++.++..+...
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~~  396 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLMEM  396 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHTT
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhccc
Confidence            45789999999999999999999987643

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.15  E-value=0.012  Score=49.04  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-.++|.|++|+|||||++.++..
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            356889999999999999999875

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.14  E-value=0.01  Score=52.42  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4568999999999999999998864

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.13  E-value=0.035  Score=50.94  Aligned_cols=37  Identities=27%  Similarity=0.258  Sum_probs=28.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .+..+++|.|++|+|||||+..++..+......+..+
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~   90 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVI   90 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            5668899999999999999999998765443333333

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.12  E-value=0.012  Score=49.21  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-.++|.|++|+|||||+..++..
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999999875

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.12  E-value=0.022  Score=55.41  Aligned_cols=31  Identities=16%  Similarity=0.084  Sum_probs=26.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ....+|+++|.+|+||||+++.+++.+.-.+
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            3557899999999999999999998875444

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.12  E-value=0.014  Score=47.08  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|.|++|+|||||...++..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.11  E-value=0.011  Score=52.21  Aligned_cols=26  Identities=19%  Similarity=0.115  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34568999999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.06  E-value=0.025  Score=52.05  Aligned_cols=29  Identities=24%  Similarity=0.398  Sum_probs=24.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ...+++|.|++|+|||||...++......
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            46789999999999999999999875444

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.04  E-value=0.023  Score=54.82  Aligned_cols=37  Identities=16%  Similarity=0.132  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.++|+|+|.+|+||||++..++..+...-..+..+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd  136 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLIC  136 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEe
Confidence            4678999999999999999999988766533344443

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.02  E-value=0.016  Score=46.21  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.++|.|++|+|||||+..+...
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            45889999999999999999865

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.01  E-value=0.012  Score=51.45  Aligned_cols=26  Identities=19%  Similarity=0.239  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|+.|+|||||++.++.-+
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999987654

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.00  E-value=0.035  Score=54.34  Aligned_cols=48  Identities=15%  Similarity=0.061  Sum_probs=32.3

Q ss_pred             cccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           51 VGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        51 vGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +.|.+..+.+.+...... ....+|+++|++|+||||+++.+.+.+...
T Consensus       352 ~~r~eV~~~lr~~~~~~~-~~~~~I~l~G~~GsGKSTia~~La~~L~~~  399 (546)
T 2gks_A          352 FTRPEVAEILAETYVPKH-KQGFCVWLTGLPCAGKSTIAEILATMLQAR  399 (546)
T ss_dssp             TSCHHHHHHHHHHSCCGG-GCCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             ccchhHHHHHHHhhcccc-ccceEEEccCCCCCCHHHHHHHHHHHhhhc
Confidence            334444444444442211 345789999999999999999999886543

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.99  E-value=0.027  Score=53.06  Aligned_cols=36  Identities=19%  Similarity=0.159  Sum_probs=28.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ...++.|.|++|+||||++..++..+......+..+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllv  132 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLV  132 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence            467899999999999999999999877654444444

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=94.99  E-value=0.025  Score=53.92  Aligned_cols=37  Identities=30%  Similarity=0.450  Sum_probs=28.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~  106 (398)
                      .+.+.++|.|++|+|||+|+.++++.... +.+..+|.
T Consensus       163 gkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~  200 (498)
T 1fx0_B          163 RRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG  200 (498)
T ss_dssp             CTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE
T ss_pred             ccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE
Confidence            45567899999999999999999998643 33444554

>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=94.97  E-value=0.011  Score=48.79  Aligned_cols=21  Identities=38%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -++|.|++|+|||||+..++.
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            478999999999999999875

>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=94.97  E-value=0.014  Score=53.75  Aligned_cols=26  Identities=27%  Similarity=0.190  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||+|+|||||++.++--
T Consensus        28 ~~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           28 DPGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHhcC
Confidence            34568999999999999999999864

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.95  E-value=0.0066  Score=60.19  Aligned_cols=52  Identities=15%  Similarity=0.044  Sum_probs=36.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCC--------CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLT--------MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~--------~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .-.+.++|.+...+.+...+.+...        .+...++++|++|+|||+||+.+++..
T Consensus       292 ~l~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          292 SIAPSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             HTSSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             hhcchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            3456799999877776555543210        001168899999999999999987654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.94  E-value=0.011  Score=51.85  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999998865

>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=94.93  E-value=0.039  Score=50.80  Aligned_cols=38  Identities=24%  Similarity=0.157  Sum_probs=31.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +...++++.|.||+||||++..++..+...-..+..+.
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   61 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVS   61 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEe
Confidence            45678888999999999999999999877755555555

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=94.93  E-value=0.027  Score=51.25  Aligned_cols=36  Identities=33%  Similarity=0.287  Sum_probs=30.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+++..|.||+||||+|..++..+.+....+..+.
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   49 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVIS   49 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEe
Confidence            578888999999999999999999877765566665

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.91  E-value=0.013  Score=52.16  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4468999999999999999998864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=94.83  E-value=0.024  Score=51.02  Aligned_cols=31  Identities=29%  Similarity=0.399  Sum_probs=25.2

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~   93 (398)
                      +++|.+.+.      ..+++|.|++|+|||||++.+.
T Consensus       156 i~~L~~~l~------G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE------GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT------TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc------CcEEEEECCCCCCHHHHHHHHH
Confidence            556666653      2578999999999999999998

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.82  E-value=0.042  Score=54.85  Aligned_cols=35  Identities=23%  Similarity=0.239  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.++|+||+|+|||+++..+...+.......+.++
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~  230 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  230 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEE
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            47889999999999999998887654333344443

>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=94.79  E-value=0.018  Score=53.13  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++--
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           27 KDGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHHCC
Confidence            34568999999999999999999864

>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=94.79  E-value=0.012  Score=50.73  Aligned_cols=26  Identities=27%  Similarity=0.174  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+||||+++.++..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            45578999999999999999998765

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.78  E-value=0.018  Score=53.19  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++--
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           27 KDGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcC
Confidence            34568999999999999999998864

>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=94.77  E-value=0.014  Score=47.99  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.|+|.+|+||||+|.+++..
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

>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=94.76  E-value=0.013  Score=52.76  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....++|+|+.|+|||||++.++.-
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcC
Confidence            45578999999999999999988764

>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=94.76  E-value=0.018  Score=53.42  Aligned_cols=26  Identities=15%  Similarity=0.139  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||+|+|||||++.++--
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcC
Confidence            34568999999999999999999864

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.76  E-value=0.02  Score=47.12  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +...++|.|++|+|||||+..++..
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4467899999999999999999863

>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=94.75  E-value=0.017  Score=47.50  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.+|+|+.|+|||||+..++.-+.
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHc
Confidence            4889999999999999999877643

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.74  E-value=0.018  Score=46.22  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-.|+|.|++|+|||||+..+...
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            446789999999999999999865

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=94.73  E-value=0.016  Score=53.21  Aligned_cols=26  Identities=23%  Similarity=0.112  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++--
T Consensus        24 ~~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           24 ESGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCccHHHHHHHHHcC
Confidence            34568999999999999999998864

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.71  E-value=0.017  Score=51.12  Aligned_cols=23  Identities=22%  Similarity=0.540  Sum_probs=20.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++|.|+.|+|||||++.++...
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            57899999999999999999763

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.70  E-value=0.0089  Score=52.69  Aligned_cols=28  Identities=18%  Similarity=0.124  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+...|+|.|+.|+||||+++.+.+.+.
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4557899999999999999999877653

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.70  E-value=0.032  Score=49.07  Aligned_cols=35  Identities=20%  Similarity=0.325  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|.|-||+||||++..++..+......+..+.
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD   36 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEc
Confidence            46777899999999999999999876654555554

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.69  E-value=0.018  Score=49.06  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+++|+|++|+||||+++.+.+.+
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            478999999999999999998764

>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=94.67  E-value=0.02  Score=53.13  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++--
T Consensus        35 ~~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           35 KDGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcC
Confidence            34568999999999999999998864

>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=94.67  E-value=0.042  Score=60.37  Aligned_cols=95  Identities=20%  Similarity=0.095  Sum_probs=57.4

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCC-----
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDG-----  133 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~-----  133 (398)
                      .|-..|....-++.++|-|+||.|+||||||.++....+..-...+|+.    .....++..     ++.++-..     
T Consensus      1418 ~lD~~lg~gG~prg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~----~e~~~~~~~-----~~~~Gv~~~~l~~ 1488 (1706)
T 3cmw_A         1418 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDPIY-----ARKLGVDIDNLLC 1488 (1706)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC----TTSCCCHHH-----HHHTTCCGGGCEE
T ss_pred             HHHHhcCCCCCCCCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe----cCCCCCHHH-----HHHcCCCHHHeEE
Confidence            4444554322267789999999999999999999988777777788887    333333322     22322111     


Q ss_pred             CCCCCCccchHHHHHhhC-CceEEEEEeCC
Q 015918          134 NMNKFPNIGLNFQSKRLT-RKKVLIVFDDV  162 (398)
Q Consensus       134 ~~~~~~~~~~~~l~~~l~-~~~~LlvlDd~  162 (398)
                      ..++..+.........++ +..-+||+|.+
T Consensus      1489 ~~p~~~e~~l~~~~~~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1489 SQPDTGEQALEICDALARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             ECCSSHHHHHHHHHHHHHHTCCSEEEESCS
T ss_pred             eCCCcHHHHHHHHHHHHHcCCCCEEEEccH
Confidence            011222223333444443 45669999998

>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=94.67  E-value=0.016  Score=51.88  Aligned_cols=26  Identities=23%  Similarity=0.277  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            45568999999999999999998865

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=94.66  E-value=0.016  Score=52.74  Aligned_cols=26  Identities=19%  Similarity=0.219  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++++|+|+.|+|||||++.+....
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            46799999999999999999998763

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.66  E-value=0.017  Score=53.18  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.||.|+|||||++.++--
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4468999999999999999998854

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.66  E-value=0.02  Score=52.78  Aligned_cols=26  Identities=19%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcC
Confidence            45568999999999999999988764

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.66  E-value=0.018  Score=45.98  Aligned_cols=22  Identities=41%  Similarity=0.655  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .|+|.|.+|+|||||+..+...
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            4789999999999999999865

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=94.64  E-value=0.034  Score=48.17  Aligned_cols=33  Identities=30%  Similarity=0.601  Sum_probs=26.8

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      |.|.|-||+||||++..++..+......+..+.
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD   35 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVD   35 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            556999999999999999999877755555554

>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=94.63  E-value=0.015  Score=54.62  Aligned_cols=25  Identities=16%  Similarity=0.279  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....++|.|++|+|||||.+.++..
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            4568999999999999999999873

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.62  E-value=0.016  Score=51.04  Aligned_cols=25  Identities=32%  Similarity=0.334  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+++|.|+.|+|||||++.++.-.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999988653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.59  E-value=0.024  Score=46.12  Aligned_cols=26  Identities=23%  Similarity=0.138  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...|+|.|++|+|||||+..+...
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45667899999999999999999764

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.58  E-value=0.024  Score=47.99  Aligned_cols=26  Identities=19%  Similarity=0.110  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|++|+|||||+..++..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            44567889999999999999999875

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.56  E-value=0.021  Score=45.65  Aligned_cols=23  Identities=39%  Similarity=0.668  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.|+|.|++|+|||||+..+...
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            35789999999999999998865

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.56  E-value=0.02  Score=46.41  Aligned_cols=24  Identities=38%  Similarity=0.540  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346889999999999999998754

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.53  E-value=0.026  Score=48.08  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=25.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +...|++.|+.|+||||++..+.+.+..
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3468999999999999999999998866

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=94.51  E-value=0.038  Score=53.11  Aligned_cols=31  Identities=16%  Similarity=0.023  Sum_probs=25.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .....|+++|.+|+||||+++.+++.+...+
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            3456889999999999999999998865444

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=94.50  E-value=0.019  Score=53.24  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.||.|+|||||++.++--
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcC
Confidence            4468999999999999999998864

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.49  E-value=0.024  Score=45.36  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..++..
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            789999999999999999865

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=94.49  E-value=0.023  Score=47.70  Aligned_cols=41  Identities=24%  Similarity=0.245  Sum_probs=20.9

Q ss_pred             ccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           52 GVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        52 GR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++..-.+.+.+....   .+.-.|+|.|.+|+|||||+..++..
T Consensus        13 ~~~~~~~~m~~~~~~---~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQ---GQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             --------------------CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcccchhHHHhHhhc---CCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            344444444444333   33456789999999999999998864

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=94.49  E-value=0.04  Score=54.21  Aligned_cols=28  Identities=25%  Similarity=0.258  Sum_probs=24.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ...+|+|+|++|+||||+++.+.+.+..
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            4568999999999999999999998764

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.49  E-value=0.042  Score=53.59  Aligned_cols=38  Identities=18%  Similarity=0.221  Sum_probs=29.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....+++|.|++|+|||||++.++......-..++|+.
T Consensus       279 ~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~  316 (525)
T 1tf7_A          279 FKDSIILATGATGTGKTLLVSRFVENACANKERAILFA  316 (525)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEE
Confidence            45678999999999999999999987654433345554

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.49  E-value=0.023  Score=45.53  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346889999999999999999865

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.47  E-value=0.025  Score=48.54  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      -.++|.|++|+||||+|+.+++.+
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            457899999999999999998875

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.46  E-value=0.023  Score=45.74  Aligned_cols=25  Identities=28%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-.|+|.|++|+|||||+..+...
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3446889999999999999999865

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.45  E-value=0.016  Score=53.36  Aligned_cols=26  Identities=27%  Similarity=0.389  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++--
T Consensus        29 ~~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           29 ENGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34568999999999999999998854

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=94.44  E-value=0.055  Score=45.05  Aligned_cols=36  Identities=11%  Similarity=-0.201  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      +.++.+++|+.|+||||.+...+++...+...+..+
T Consensus         7 ~g~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~   42 (191)
T 1xx6_A            7 HGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVF   42 (191)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEE
Confidence            457899999999999999999998865544444444

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.42  E-value=0.024  Score=45.55  Aligned_cols=22  Identities=41%  Similarity=0.545  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|++|+|||||+..+...
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            4789999999999999999865

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.40  E-value=0.024  Score=45.39  Aligned_cols=22  Identities=45%  Similarity=0.720  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..+...
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            5789999999999999999864

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.40  E-value=0.024  Score=45.57  Aligned_cols=23  Identities=35%  Similarity=0.497  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|++|+|||||+..+...
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            45889999999999999999875

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=94.39  E-value=0.054  Score=49.39  Aligned_cols=38  Identities=21%  Similarity=0.219  Sum_probs=31.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +...++++.|-||+||||++..++..+.+....+..+.
T Consensus        17 ~~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD   54 (329)
T 2woo_A           17 TSLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLIS   54 (329)
T ss_dssp             TTCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEE
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            44578888999999999999999999887765566555

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.38  E-value=0.024  Score=52.55  Aligned_cols=26  Identities=15%  Similarity=0.252  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...++|.|++|+|||||++.++..+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            56889999999999999999987743

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.37  E-value=0.025  Score=45.97  Aligned_cols=24  Identities=29%  Similarity=0.580  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..+...
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            456889999999999999999864

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.35  E-value=0.024  Score=45.66  Aligned_cols=21  Identities=43%  Similarity=0.675  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|+|.|++|+|||||+..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999863

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.35  E-value=0.026  Score=47.45  Aligned_cols=26  Identities=15%  Similarity=0.073  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+|+|.|+.|+||||+++.+++++.
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999999864

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=94.32  E-value=0.025  Score=46.63  Aligned_cols=23  Identities=39%  Similarity=0.619  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.|+|.|.+|+|||||+..++..
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            46789999999999999999865

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.31  E-value=0.026  Score=46.59  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3446889999999999999988865

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.31  E-value=0.024  Score=45.59  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|++|+|||||+..+...
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            35789999999999999999854

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.30  E-value=0.025  Score=52.81  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||+|+|||||++.++.-
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCC
Confidence            45568999999999999999998864

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.30  E-value=0.032  Score=45.45  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=21.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|++|+|||||+..++..
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhC
Confidence            34567889999999999999999865

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.28  E-value=0.04  Score=49.15  Aligned_cols=35  Identities=17%  Similarity=0.350  Sum_probs=27.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|.|-||+||||++..++..+......+..+.
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD   37 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEe
Confidence            57778999999999999999999876644455444

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.27  E-value=0.024  Score=46.56  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..+...
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            4456789999999999999999875

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=94.26  E-value=0.071  Score=49.12  Aligned_cols=38  Identities=18%  Similarity=0.176  Sum_probs=30.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh--ccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS--RRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~--~~f~~~~~~~  107 (398)
                      ....+++..|-||+||||++..++..+.  .....+..+.
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD   55 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLIS   55 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEE
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            3456788899999999999999999988  6655566655

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.26  E-value=0.025  Score=45.50  Aligned_cols=23  Identities=30%  Similarity=0.725  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.|+|.|++|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999863

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.25  E-value=0.024  Score=46.23  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|.|++|+|||||...++..
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            46789999999999999999864

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=94.25  E-value=0.051  Score=45.47  Aligned_cols=35  Identities=20%  Similarity=0.129  Sum_probs=27.0

Q ss_pred             eEEEEE-cCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIW-GIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~-G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|+ +-||+||||++..++..+......+..+.
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD   37 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVD   37 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEE
Confidence            456665 77889999999999999877655566555

>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=94.25  E-value=0.028  Score=45.18  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|.+|+|||||+..++..
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            45789999999999999999864

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.22  E-value=0.035  Score=44.67  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +...|+|.|++|+|||||+..+...
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999764

>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=94.19  E-value=0.052  Score=53.77  Aligned_cols=38  Identities=26%  Similarity=0.206  Sum_probs=31.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+++++.|.+|+||||++..++..+.+....+..+.
T Consensus         6 ~~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd   43 (589)
T 1ihu_A            6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (589)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEE
Confidence            35678999999999999999999998776655556654

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.17  E-value=0.043  Score=50.44  Aligned_cols=33  Identities=21%  Similarity=0.254  Sum_probs=24.9

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++.|...+.      ..+++|.|++|+|||||+..++..
T Consensus       206 l~~L~~~~~------G~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          206 LKPLEEALT------GRISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             HHHHHHHHT------TSEEEEECCTTSSHHHHHHHHHCC
T ss_pred             HHHHHHhcC------CCEEEEECCCCccHHHHHHHHhcc
Confidence            455555442      247899999999999999988754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.15  E-value=0.041  Score=45.16  Aligned_cols=25  Identities=20%  Similarity=0.405  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....|+|.|++|+|||||+..++..
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            4567889999999999999998754

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.15  E-value=0.034  Score=45.22  Aligned_cols=26  Identities=42%  Similarity=0.594  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|.+|+|||||+..+...
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567889999999999999999875

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.15  E-value=0.047  Score=54.01  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +..+|+|+|++|+||||+++.+.+.+..
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~   78 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVC   78 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            5678999999999999999999998743

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.15  E-value=0.024  Score=45.48  Aligned_cols=21  Identities=43%  Similarity=0.575  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|+|.|++|+|||||+..+..
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            478999999999999998863

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.14  E-value=0.029  Score=46.44  Aligned_cols=26  Identities=15%  Similarity=0.322  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...|+|.|++|+|||||+..++..
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999999754

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.14  E-value=0.029  Score=46.33  Aligned_cols=25  Identities=36%  Similarity=0.554  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhC
Confidence            3446889999999999999999865

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=94.12  E-value=0.03  Score=45.45  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-.|+|.|.+|+|||||+..+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456889999999999999999865

>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=94.12  E-value=0.043  Score=49.37  Aligned_cols=33  Identities=30%  Similarity=0.368  Sum_probs=25.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++++.+++.+      .+++|.|++|+|||||++.++..
T Consensus       160 v~~lf~~l~g------eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLKG------KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHSS------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhcC------CeEEEECCCCCcHHHHHHHhccc
Confidence            5555555532      47899999999999999998644

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.12  E-value=0.026  Score=45.91  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..+...
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999999854

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=94.09  E-value=0.03  Score=46.11  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..+...
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999864

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=94.07  E-value=0.032  Score=46.34  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||...++..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345889999999999999998853

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.07  E-value=0.028  Score=46.57  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...|+|.|++|+|||||+..++..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.05  E-value=0.024  Score=52.47  Aligned_cols=36  Identities=19%  Similarity=0.120  Sum_probs=26.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++|+|+.|+|||||++.++..+.. ....+.+.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~-~~g~I~ie  209 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF-DQRLITIE  209 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT-TSCEEEEE
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC-CceEEEEC
Confidence            3458999999999999999999876543 23444443

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=94.04  E-value=0.024  Score=46.13  Aligned_cols=24  Identities=25%  Similarity=0.517  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..++..
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999999875

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.04  E-value=0.14  Score=48.97  Aligned_cols=27  Identities=26%  Similarity=0.112  Sum_probs=20.7

Q ss_pred             CCceEEEEEcCCCccHHHHHH-HHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAG-AFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~-~~~~~~   96 (398)
                      .+.+.++|.|++|+|||+|+. .+++..
T Consensus       160 grGQR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          160 GRGQRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             BTTCBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             ccCCEEEEECCCCCCchHHHHHHHHHhh
Confidence            455678899999999999965 555543

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=94.02  E-value=0.032  Score=46.19  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..++..
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            456889999999999999999875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.02  E-value=0.096  Score=58.41  Aligned_cols=58  Identities=19%  Similarity=0.180  Sum_probs=43.7

Q ss_pred             cccccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           49 KLVGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+-..-...|-..|. +.- ....++.|+|++|+||||||.+++......-..++|++
T Consensus       360 ~~~~I~TG~~~LD~lLG~GGl-~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis  418 (2050)
T 3cmu_A          360 DVETISTGSLSLDIALGAGGL-PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  418 (2050)
T ss_dssp             SCCEECCSCHHHHHHHSSSSE-ETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCceeeCCCHHHHHHhccCCc-cCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34455555666766675 333 56789999999999999999999998776655677876

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.02  E-value=0.03  Score=45.47  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.|+|.|++|+|||||+..++..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45788999999999999999864

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.01  E-value=0.28  Score=50.13  Aligned_cols=23  Identities=26%  Similarity=0.174  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|.|+.|+||||++..++..
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999977777544

>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=93.99  E-value=0.05  Score=52.01  Aligned_cols=27  Identities=30%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             CCceEEEEEcCCCccHHHHHH-HHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAG-AFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~-~~~~~~   96 (398)
                      .+.+.++|.|++|+|||+|+. .+++..
T Consensus       173 grGQR~~I~g~~g~GKT~Lal~~I~~~~  200 (515)
T 2r9v_A          173 GRGQRELIIGDRQTGKTAIAIDTIINQK  200 (515)
T ss_dssp             ETTCBEEEEEETTSSHHHHHHHHHHTTT
T ss_pred             ccCCEEEEEcCCCCCccHHHHHHHHHhh
Confidence            355678899999999999965 555543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.99  E-value=0.033  Score=45.98  Aligned_cols=25  Identities=24%  Similarity=0.452  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....|+|.|++|+|||||+..+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            4457889999999999999999865

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=93.98  E-value=0.033  Score=45.57  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|.+|+|||||+..+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998864

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=93.95  E-value=0.033  Score=45.69  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|++|+|||||+..+...
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            45789999999999999999865

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.95  E-value=0.088  Score=44.96  Aligned_cols=108  Identities=10%  Similarity=-0.048  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ...+.+++|+-|.||||.+...+++.......+..+....  +.... ..+...    ++.......... ..+ +....
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~--D~Ryg-~~i~sr----~G~~~~a~~i~~-~~d-i~~~~   88 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAK--DTRYS-SSFCTH----DRNTMEALPACL-LRD-VAQEA   88 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETT--CCCC----------------CEEEEESS-GGG-GHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecC--Cccch-HHHHhh----cCCeeEEEecCC-HHH-HHHHh
Confidence            3578899999999999888888877655544444444221  11222 222222    211110000000 111 11122


Q ss_pred             CCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          151 TRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       151 ~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                       +.--+|+||++.-...+..+...+.  ..+..||+|.++
T Consensus        89 -~~~dvViIDEaQF~~~v~el~~~l~--~~gi~VI~~GL~  125 (234)
T 2orv_A           89 -LGVAVIGIDEGQFFPDIVEFCEAMA--NAGKTVIVAALD  125 (234)
T ss_dssp             -TTCSEEEESSGGGCTTHHHHHHHHH--HTTCEEEEECCS
T ss_pred             -ccCCEEEEEchhhhhhHHHHHHHHH--hCCCEEEEEecc
Confidence             2233999999842222444443333  257789999987

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.95  E-value=0.041  Score=43.81  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..+.+|+|+.|+||||+...++.-+
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            4688999999999999999987654

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=93.95  E-value=0.034  Score=45.50  Aligned_cols=25  Identities=52%  Similarity=0.732  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-.|+|.|.+|+|||||+..+...
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4456889999999999999999865

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.94  E-value=0.034  Score=45.30  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..++..
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999999865

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=93.93  E-value=0.031  Score=45.80  Aligned_cols=25  Identities=28%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..++..
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456889999999999999999865

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=93.92  E-value=0.028  Score=46.19  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|++|+|||||+..++..
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            4789999999999999998854

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.90  E-value=0.059  Score=44.30  Aligned_cols=26  Identities=31%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.-.|+|.|.+|+|||||+..+...
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999999843

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.89  E-value=0.035  Score=45.16  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..+...
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999999865

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.88  E-value=0.034  Score=46.16  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-.|+|.|++|+|||||+..++..
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            445889999999999999999875

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=93.88  E-value=0.035  Score=45.23  Aligned_cols=24  Identities=33%  Similarity=0.308  Sum_probs=20.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998754

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.88  E-value=0.035  Score=45.38  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...|+|.|++|+|||||+..++..
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            456889999999999999999865

>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=93.87  E-value=0.12  Score=49.18  Aligned_cols=26  Identities=31%  Similarity=0.174  Sum_probs=19.9

Q ss_pred             CCceEEEEEcCCCccHHHHHH-HHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAG-AFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~-~~~~~   95 (398)
                      .+.+.++|.|.+|+|||+|+. .+.+.
T Consensus       160 grGQR~~Ifg~~g~GKT~l~l~~I~n~  186 (513)
T 3oaa_A          160 GRGQRELIIGDRQTGKTALAIDAIINQ  186 (513)
T ss_dssp             BTTCBCEEEESSSSSHHHHHHHHHHTT
T ss_pred             ccCCEEEeecCCCCCcchHHHHHHHhh
Confidence            355678899999999999964 44443

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=93.87  E-value=0.054  Score=59.50  Aligned_cols=56  Identities=20%  Similarity=0.173  Sum_probs=41.8

Q ss_pred             cccchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           51 VGVDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        51 vGR~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+-..-+..|-..|. +.- +..+++.|+|++|+||||||.+++......-..++|++
T Consensus       362 ~~isTGi~~LD~lLg~GGl-~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis  418 (1706)
T 3cmw_A          362 ETISTGSLSLDIALGAGGL-PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  418 (1706)
T ss_dssp             CEECCSCHHHHHHTSSSSE-ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceeccCcHHHHHHhccCCc-CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE
Confidence            334444556666665 333 56789999999999999999999988766666778876

>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=93.83  E-value=0.021  Score=48.09  Aligned_cols=25  Identities=12%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .....++|.|++|+|||||+..++.
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhC
Confidence            4456799999999999999998764

>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=93.83  E-value=0.047  Score=52.20  Aligned_cols=28  Identities=25%  Similarity=0.112  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCccHHHHHH-HHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAG-AFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~-~~~~~~~   97 (398)
                      .+.+.++|.|++|+|||+||. .+++...
T Consensus       160 grGQR~~I~g~~g~GKT~Lal~~I~~q~~  188 (510)
T 2ck3_A          160 GRGQRELIIGDRQTGKTSIAIDTIINQKR  188 (510)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTHH
T ss_pred             ccCCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            455678899999999999954 5555544

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.83  E-value=0.041  Score=46.21  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...-|+|.|++|+|||||+..++..
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999999864

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.82  E-value=0.035  Score=45.87  Aligned_cols=23  Identities=35%  Similarity=0.340  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|.+|+|||||+..+...
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            35889999999999999999875

>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=93.82  E-value=0.12  Score=45.53  Aligned_cols=53  Identities=15%  Similarity=0.084  Sum_probs=37.2

Q ss_pred             hhHHHHHHHhccC-CCCCceEEEEEcC-CCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLGVG-LTMDTCKLGIWGI-GGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~~~-~~~~~~~i~I~G~-~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.++.|...|.-. .+...++|.|+|. +|+||||++..++..+.+....+..+.
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID  118 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVD  118 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEe
Confidence            4455565555421 1245678888876 899999999999999877655566665

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=93.80  E-value=0.089  Score=53.92  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ++++|+|++|+|||+++..++..+..
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            47889999999999999998887655

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.79  E-value=0.037  Score=45.99  Aligned_cols=25  Identities=44%  Similarity=0.747  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999999875

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=93.75  E-value=0.038  Score=45.54  Aligned_cols=24  Identities=29%  Similarity=0.301  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..++..
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            456889999999999999999865

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.74  E-value=0.039  Score=45.54  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..++..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            345889999999999999999864

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.74  E-value=0.038  Score=46.12  Aligned_cols=25  Identities=36%  Similarity=0.515  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...-|+|.|++|+|||||+..+...
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999999865

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=93.72  E-value=0.039  Score=45.61  Aligned_cols=24  Identities=38%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..++..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345889999999999999999864

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.71  E-value=0.036  Score=46.52  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999999865

>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=93.71  E-value=0.043  Score=59.60  Aligned_cols=26  Identities=19%  Similarity=0.240  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +....++|+|++|+|||||+..+.+-
T Consensus      1103 ~~Ge~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1103 EPGQTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             CTTCEEEEECSTTSSTTSHHHHHTTS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcC
Confidence            34567999999999999999998763

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=93.71  E-value=0.037  Score=45.19  Aligned_cols=25  Identities=28%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +...|+|.|.+|+|||||+..+...
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3457889999999999999999854

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.70  E-value=0.047  Score=53.30  Aligned_cols=38  Identities=24%  Similarity=0.160  Sum_probs=27.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHH-HHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFF-SKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~-~~~~~~f~~~~~~~  107 (398)
                      ....+++|.|++|+|||||++.++ .-+.......+++.
T Consensus        37 ~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~   75 (525)
T 1tf7_A           37 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   75 (525)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            455789999999999999999963 33332223466665

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.69  E-value=0.049  Score=50.03  Aligned_cols=29  Identities=28%  Similarity=0.409  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+...++|.|+.|+|||||++.++.....
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            45578999999999999999999988543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.68  E-value=0.035  Score=45.09  Aligned_cols=26  Identities=35%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...--|+|.|++|+|||||+..+...
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcC
Confidence            34456889999999999999998753

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.66  E-value=0.04  Score=46.09  Aligned_cols=26  Identities=35%  Similarity=0.448  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...-.|+|.|++|+|||||+..+...
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcC
Confidence            34557889999999999999999865

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=93.64  E-value=0.03  Score=46.69  Aligned_cols=23  Identities=39%  Similarity=0.592  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~   93 (398)
                      ..-.|+|.|.+|+|||||+..++
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            44578899999999999999985

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.63  E-value=0.041  Score=45.35  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcC
Confidence            3456889999999999999999864

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.63  E-value=0.05  Score=46.52  Aligned_cols=26  Identities=12%  Similarity=0.093  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+|+|.|+.|+||||+++.+++.+.
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            46899999999999999999998863

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.62  E-value=0.038  Score=45.78  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..++..
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            456889999999999999999865

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=93.62  E-value=0.038  Score=46.51  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..++..
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4456889999999999999999875

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=93.62  E-value=0.1  Score=60.62  Aligned_cols=151  Identities=11%  Similarity=-0.010  Sum_probs=0.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL  150 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  150 (398)
                      ..+.+.++||+|+|||+++..+...+.+  ...+.++    .+...+...+...+-..+......               
T Consensus      1303 ~~~pvLL~GptGtGKT~li~~~L~~l~~--~~~~~in----fS~~Tta~~l~~~~e~~~e~~~~~--------------- 1361 (3245)
T 3vkg_A         1303 EHRPLILCGPPGSGKTMTLTSTLRAFPD--FEVVSLN----FSSATTPELLLKTFDHHCEYKRTP--------------- 1361 (3245)
T ss_dssp             TTCCCEEESSTTSSHHHHHHHHGGGCTT--EEEEEEC----CCTTCCHHHHHHHHHHHEEEEECT---------------
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHhCCC--CceEEEE----eeCCCCHHHHHHHHhhcceEEecc---------------


Q ss_pred             C----------CceEEEEEeCCCChH--------hHHHHHccCCCC------------CCCcEEEEE-------eCChhH
Q 015918          151 T----------RKKVLIVFDDVNHPR--------QIEFLIGNLDWF------------ASGSRILIT-------ARDKQA  193 (398)
Q Consensus       151 ~----------~~~~LlvlDd~~~~~--------~~~~l~~~l~~~------------~~~~~iliT-------sR~~~~  193 (398)
                      +          +++.++++||++-+.        .++.+...+...            ..+..+|.|       .|.+-.
T Consensus      1362 ~~G~~~~p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~ 1441 (3245)
T 3vkg_A         1362 SGETVLRPTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLT 1441 (3245)
T ss_dssp             TSCEEEEESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCC
T ss_pred             CCCcccCCCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCC


Q ss_pred             HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHc
Q 015918          194 LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYA  242 (398)
Q Consensus       194 ~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~  242 (398)
                      ....+....+.++..+.++...+|...........+........+++.+
T Consensus      1442 ~Rf~r~F~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~at 1490 (3245)
T 3vkg_A         1442 HRFLRHAPILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAM 1490 (3245)
T ss_dssp             HHHHTTCCEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHH
T ss_pred             HHHHhhceEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=93.61  E-value=0.042  Score=45.53  Aligned_cols=24  Identities=38%  Similarity=0.434  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..++..
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            346889999999999999999875

>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=93.60  E-value=0.029  Score=51.20  Aligned_cols=85  Identities=12%  Similarity=0.037  Sum_probs=49.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR  152 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  152 (398)
                      ..++|.|+.|+|||||++.++..+... ...+.+.......... ..       .....   ...........+...+..
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~~-~g~i~i~~~~e~~~~~-~~-------~~i~~---~~ggg~~~r~~la~aL~~  239 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFKH-HK-------NYTQL---FFGGNITSADCLKSCLRM  239 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTT-SCEEEEESSCCCCCSS-CS-------SEEEE---ECBTTBCHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCC-CcEEEECCeecccccc-ch-------hEEEE---EeCCChhHHHHHHHHhhh
Confidence            489999999999999999998765432 3445544221110000 00       00000   000122255666677778


Q ss_pred             ceEEEEEeCCCChHhHH
Q 015918          153 KKVLIVFDDVNHPRQIE  169 (398)
Q Consensus       153 ~~~LlvlDd~~~~~~~~  169 (398)
                      .|-+|++|+....+.++
T Consensus       240 ~p~ilildE~~~~e~~~  256 (330)
T 2pt7_A          240 RPDRIILGELRSSEAYD  256 (330)
T ss_dssp             CCSEEEECCCCSTHHHH
T ss_pred             CCCEEEEcCCChHHHHH
Confidence            88899999997654444

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=93.59  E-value=0.045  Score=46.12  Aligned_cols=25  Identities=16%  Similarity=0.166  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....|+|.|.+|+|||||+..++..
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456889999999999999999865

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.58  E-value=0.042  Score=45.36  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .--|+|.|.+|+|||||++.+....
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhc
Confidence            3468899999999999997665543

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=93.55  E-value=0.043  Score=46.73  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..++..
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3778999999999999998854

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=93.54  E-value=0.072  Score=46.96  Aligned_cols=26  Identities=23%  Similarity=0.546  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|.+|+|||||...++..
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            34567889999999999999999854

>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=93.54  E-value=0.033  Score=53.25  Aligned_cols=27  Identities=26%  Similarity=0.180  Sum_probs=20.8

Q ss_pred             CCceEEEEEcCCCccHHHHHH-HHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAG-AFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~-~~~~~~   96 (398)
                      .+.+.++|.|++|+|||+|+. .+++..
T Consensus       161 grGQR~~Ifg~~g~GKT~Lal~~I~~~~  188 (507)
T 1fx0_A          161 GRGQRELIIGDRQTGKTAVATDTILNQQ  188 (507)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             ccCCEEEEecCCCCCccHHHHHHHHHhh
Confidence            455678899999999999965 555543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.53  E-value=0.044  Score=45.67  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..++..
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            4457889999999999999999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.52  E-value=0.044  Score=45.30  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..++..
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            446889999999999999999865

>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=93.52  E-value=0.041  Score=46.66  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .--|+|.|.+|+|||||+..++.
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34588999999999999998873

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=93.49  E-value=0.074  Score=46.66  Aligned_cols=26  Identities=27%  Similarity=0.592  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.-.|+|.|.+|+|||||+..+...
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999999864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.48  E-value=0.041  Score=45.92  Aligned_cols=25  Identities=36%  Similarity=0.403  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...-|+|.|.+|+|||||+..+...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            4556889999999999999999875

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.48  E-value=0.045  Score=45.16  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -.|+|.|++|+|||||+..+...
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            46889999999999999999875

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.46  E-value=0.043  Score=45.81  Aligned_cols=24  Identities=29%  Similarity=0.301  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|.+|+|||||+..+...
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            456889999999999999998864

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=93.45  E-value=0.081  Score=44.65  Aligned_cols=27  Identities=15%  Similarity=-0.189  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+.+|+|+-|+||||.+...+++..
T Consensus        27 ~G~I~vitG~M~sGKTT~Llr~~~r~~   53 (219)
T 3e2i_A           27 SGWIECITGSMFSGKSEELIRRLRRGI   53 (219)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457889999999999995544455433

>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=93.44  E-value=0.04  Score=46.01  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ...|+|.|++|+|||||+..+..
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            34688999999999999999864

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=93.42  E-value=0.041  Score=49.50  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +...++|.|++|+|||||+..++..
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999999864

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=93.42  E-value=0.073  Score=47.59  Aligned_cols=48  Identities=21%  Similarity=0.249  Sum_probs=31.6

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEc---CCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWG---IGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G---~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.++.+.+..    +.++++|.+   -||+||||++..++..+......+..+.
T Consensus        22 ~~~~~~r~~~~----~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD   72 (298)
T 2oze_A           22 ILEELRRILSN----KNEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMID   72 (298)
T ss_dssp             HHHHHHHHHHH----HCSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHhcC----CCcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEe
Confidence            34444444442    234566664   9999999999999998876544455554

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.41  E-value=0.05  Score=45.08  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|.+|+|||||+..++..
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            45677999999999999999998754

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.38  E-value=0.044  Score=45.47  Aligned_cols=25  Identities=28%  Similarity=0.646  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..+...
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcC
Confidence            3456889999999999999999864

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.38  E-value=0.086  Score=48.93  Aligned_cols=38  Identities=16%  Similarity=0.191  Sum_probs=29.6

Q ss_pred             CCceEEEEEc-CCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWG-IGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G-~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.++|+|+| -||+||||++..++..+......+..+.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD  179 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLN  179 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEE
Confidence            4567787765 8999999999999998877655566655

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.36  E-value=0.04  Score=52.63  Aligned_cols=26  Identities=23%  Similarity=0.258  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+++|.|+.|+|||||++.++...
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            44689999999999999999998764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.34  E-value=0.056  Score=51.32  Aligned_cols=28  Identities=21%  Similarity=0.391  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+...++|.|++|+|||||++.++....
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            4557899999999999999999988754

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=93.33  E-value=0.24  Score=43.29  Aligned_cols=49  Identities=12%  Similarity=-0.169  Sum_probs=37.7

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..|-+.|.+.- .+.++++|.|.+|.|||+|+.+++..-..+-+.++++.
T Consensus         8 ~~LD~~l~GGl-~~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~   56 (260)
T 3bs4_A            8 EELDREIGKIK-KHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFS   56 (260)
T ss_dssp             HHHHHHHCCBC-TTCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             HHHHHHhCCCC-CCCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEE
Confidence            45556676655 67788999999999999999999987556666667765

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.33  E-value=0.045  Score=45.81  Aligned_cols=25  Identities=32%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|++|+|||||+..+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999865

>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=93.28  E-value=0.51  Score=46.02  Aligned_cols=38  Identities=21%  Similarity=0.168  Sum_probs=28.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC---cceEEEeec
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF---EGSYFAHNV  109 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f---~~~~~~~~~  109 (398)
                      .+.++|.|.+|+|||++++.++..+...+   ...+|+.+.
T Consensus       214 ~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDp  254 (574)
T 2iut_A          214 MPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDP  254 (574)
T ss_dssp             SCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECS
T ss_pred             CCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCC
Confidence            35689999999999999999888765443   244555543

>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=93.27  E-value=0.087  Score=44.76  Aligned_cols=34  Identities=18%  Similarity=-0.031  Sum_probs=25.7

Q ss_pred             eEEEEEc-CCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           73 CKLGIWG-IGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        73 ~~i~I~G-~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      +++.|+| -+|+||||++..++..+.++...+..+
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll~   36 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence            4666766 489999999999999987665445544

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=93.27  E-value=0.036  Score=49.84  Aligned_cols=21  Identities=29%  Similarity=0.574  Sum_probs=18.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|+|.|++|+|||||+..++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            458999999999999999763

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.25  E-value=0.057  Score=46.60  Aligned_cols=26  Identities=19%  Similarity=0.392  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....|+|.|++|+|||||+..++..
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCC
Confidence            34567899999999999999998864

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=93.25  E-value=0.052  Score=46.38  Aligned_cols=25  Identities=16%  Similarity=0.170  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....|+|.|.+|+|||||+..++..
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.24  E-value=0.049  Score=45.37  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..++..
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999998854

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=93.22  E-value=0.051  Score=47.95  Aligned_cols=24  Identities=29%  Similarity=0.279  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...|+|.|++|+|||||...++..
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            356889999999999999999754

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=93.21  E-value=0.15  Score=45.72  Aligned_cols=53  Identities=17%  Similarity=0.193  Sum_probs=36.1

Q ss_pred             hhHHHHHHHhcc-CCCCCceEEEEEcC-CCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           55 SRIEEILSLLGV-GLTMDTCKLGIWGI-GGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        55 ~el~~l~~~L~~-~~~~~~~~i~I~G~-~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.++.|...|.- ..+...++|.|+|. +|+||||++..++..+......+..+.
T Consensus        86 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID  140 (299)
T 3cio_A           86 EAVRALRTSLHFAMMETENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFID  140 (299)
T ss_dssp             HHHHHHHHHHHHHTSSCSCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHHHHHhccCCCCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEE
Confidence            344555444431 11145678888886 799999999999999877655566654

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.19  E-value=0.046  Score=45.65  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..--|+|.|.+|+|||||+..+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456889999999999999998743

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.19  E-value=0.098  Score=53.68  Aligned_cols=26  Identities=27%  Similarity=0.259  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      +.++|+||+|+|||+++..+...+..
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~~l~~  401 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVYHLSK  401 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47889999999999998888776543

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.16  E-value=0.052  Score=44.48  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.-.|+|.|++|+|||||+..+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999998854

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=93.15  E-value=0.067  Score=49.53  Aligned_cols=35  Identities=26%  Similarity=0.189  Sum_probs=29.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++++.|.+|+||||++..++..+......+..+.
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd   37 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAG   37 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEe
Confidence            67889999999999999999998777665666665

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.13  E-value=0.05  Score=45.67  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-|+|.|.+|+|||||+..++..
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999998864

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=93.13  E-value=0.03  Score=45.84  Aligned_cols=24  Identities=38%  Similarity=0.400  Sum_probs=10.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .--|+|.|++|+|||||+..+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998754

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.11  E-value=0.051  Score=44.94  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|.+|+|||||+..+...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999865

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.11  E-value=0.041  Score=44.93  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ....|+|.|++|+|||||+..+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            446788999999999999988763

---

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	398
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-36

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  131 bits (329), Expect = 5e-36
 Identities = 43/264 (16%), Positives = 81/264 (30%), Gaps = 18/264 (6%)

Query: 46  TENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK---ISRRFEG 102
            +      +  ++ ++  L     +D+  L + G  G GK+ IA    SK   +      
Sbjct: 18  KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD 77

Query: 103 SYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGL-------NFQSKRLTRKKV 155
           S                     LL     D  +N      +          +  + R   
Sbjct: 78  SIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNT 137

Query: 156 LIVFDDVNHPRQIEFLIGNLDWFASGSRILITARDKQ-ALINCGVNKIYQIKELVHVDAL 214
           L VFDDV     I +            R L+T RD + +       +  ++  L   +  
Sbjct: 138 LFVFDDVVQEETIRW------AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECY 191

Query: 215 KLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAISKLEMV 274
             L          +    ++ ++ I+ + G P  L +  +    K  E      +KLE  
Sbjct: 192 DFLEAYGMPMPVGEK-EEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESR 250

Query: 275 PQMEIQEVLKISYDGLDDKEKNIF 298
             + ++ +   SY  L    +   
Sbjct: 251 GLVGVECITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	398
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.63
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.24
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.23
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.19
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.19
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.14
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.13
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.12
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.12
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.11
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.08
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.05
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.94
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.92
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.9
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.87
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.83
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.77
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.71
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.69
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.69
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.66
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.09
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.05
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.84
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.79
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.75
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.73
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.72
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.65
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.62
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.59
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.58
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.54
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.53
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.51
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.51
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.5
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.48
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.48
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.44
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.44
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.4
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.39
d1okkd2	207	GTPase domain of the signal recognition particle r	97.39
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.38
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.35
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.28
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.28
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.27
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.27
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.24
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.22
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.22
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.22
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.21
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.21
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.2
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.11
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.09
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.04
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.04
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.03
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.01
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.0
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.99
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.98
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.98
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.97
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.96
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.94
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.94
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.92
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.92
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.9
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.88
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.85
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.8
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.78
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.78
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.77
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.75
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.75
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.73
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.73
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.7
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.69
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.69
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.66
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.65
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.63
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.63
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.59
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.57
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.51
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.49
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.44
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.42
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.33
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.31
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.31
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.3
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.24
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.23
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.21
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.19
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.17
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.13
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.13
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.06
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.05
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.01
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.89
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.85
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.8
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.76
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.76
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.75
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.65
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.65
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.64
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.55
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.5
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.5
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.5
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.5
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.47
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.47
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.46
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.45
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.43
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.4
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.39
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.39
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.38
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	95.35
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.31
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.3
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.23
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.22
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.18
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.17
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.14
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.13
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.12
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.12
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.12
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.1
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.1
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.06
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.04
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.03
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.02
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.0
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.99
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.99
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.95
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.93
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.91
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.9
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.89
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.89
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.89
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.86
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.85
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.84
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.84
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.83
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.82
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.81
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.79
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.76
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.76
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.75
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.75
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.74
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.72
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.72
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.71
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.68
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.66
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.65
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.65
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.63
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.62
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.62
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.6
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.58
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.56
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.54
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.52
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.51
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.5
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.44
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.43
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.41
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.32
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.31
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.29
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.24
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.24
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.23
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.21
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.2
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.19
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.14
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.01
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.01
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.97
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.97
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.95
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.87
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.84
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	93.81
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.76
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.74
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.65
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.61
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.4
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.37
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.31
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.17
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.05
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.04
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.82
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.76
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	92.6
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.57
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.51
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.47
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.41
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.06
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	91.49
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	91.34
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	91.24
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	90.83
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.69
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.31
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.29
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.23
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.66
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	89.65
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.58
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.04
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	88.79
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	88.71
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	88.36
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	87.67
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	86.95
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	86.41
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	86.37
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	85.71
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	85.61
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.33
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	84.89
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	84.22
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	84.15
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	83.82
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	82.66
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	82.09
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	81.94
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.12
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	80.84
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.73
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	80.31
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	80.1

>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=4.3e-35  Score=263.42  Aligned_cols=246  Identities=17%  Similarity=0.169  Sum_probs=191.4

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH----hhccCcceEEEeechhhhhcCCHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK----ISRRFEGSYFAHNVREAEETGKLAD  120 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~----~~~~f~~~~~~~~~~~~~~~~~~~~  120 (398)
                      |..+.++||+.++++|.++|...++...++|+|+|+||+||||||++++++    ....|++++|++    .+...+...
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~----vs~~~~~~~   92 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKST   92 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHH
T ss_pred             CCCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEE----ecCCCCHHH
Confidence            455668899999999999997544366789999999999999999999987    455689999998    444444444


Q ss_pred             HHHHHHHHH---hcCCCC--CCCCcc-----chHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEeCC
Q 015918          121 LRKELLSTL---LNDGNM--NKFPNI-----GLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITARD  190 (398)
Q Consensus       121 ~~~~i~~~l---~~~~~~--~~~~~~-----~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTsR~  190 (398)
                      +...+....   ......  +.....     ....+...+.++++|+||||+|+..++..+..      .+++||+|||+
T Consensus        93 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~  166 (277)
T d2a5yb3          93 FDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRD  166 (277)
T ss_dssp             HHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESB
T ss_pred             HHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeeh
Confidence            444433322   222111  111111     22345567789999999999999998887754      37899999999


Q ss_pred             hhHHHhcCCC-eeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHHHhccCCHHHHHHHHH
Q 015918          191 KQALINCGVN-KIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGRFLFRKRKEVWENAIS  269 (398)
Q Consensus       191 ~~~~~~~~~~-~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~~l~~~~~~~~~~~~~  269 (398)
                      ..++...... ..+++++|+.+|+++||...++....+ ...++...++++.|+|+|+||+.+|+.++..+.+.|....+
T Consensus       167 ~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~  245 (277)
T d2a5yb3         167 VEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNN  245 (277)
T ss_dssp             GGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHH
T ss_pred             HHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHH
Confidence            9888765543 679999999999999999887654433 34578889999999999999999999999888899999888


Q ss_pred             HhccCChhhHHHHHHHhHhcCchHHHHHHHHh
Q 015918          270 KLEMVPQMEIQEVLKISYDGLDDKEKNIFLDI  301 (398)
Q Consensus       270 ~l~~~~~~~v~~~l~~~~~~L~~~~~~~l~~l  301 (398)
                      .+.+.....+..++..+|+.||++.|.||.++
T Consensus       246 ~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         246 KLESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHhcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            88766667788999999999999999998753

>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=99.63  E-value=5.8e-15  Score=131.21  Aligned_cols=196  Identities=14%  Similarity=0.157  Sum_probs=115.8

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhh-hcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAE-ETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~~  123 (398)
                      ..++.|+||++|+++|.+.       ..+.++|+|++|+|||+|++++++.....+   .|+....... .......+..
T Consensus         9 ~~~~~f~GR~~el~~l~~~-------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~~~~   78 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL-------RAPITLVLGLRRTGKSSIIKIGINELNLPY---IYLDLRKFEERNYISYKDFLL   78 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT-------CSSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEEEGGGGTTCSCCCHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc-------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEEEeccccccccccHHHHHH
Confidence            5678999999999999873       346899999999999999999998875543   3443221111 1222333333


Q ss_pred             HHHHHHhcC-----------C---------------CCCCCCccchHHHHH--hhCCceEEEEEeCCCChH---------
Q 015918          124 ELLSTLLND-----------G---------------NMNKFPNIGLNFQSK--RLTRKKVLIVFDDVNHPR---------  166 (398)
Q Consensus       124 ~i~~~l~~~-----------~---------------~~~~~~~~~~~~l~~--~l~~~~~LlvlDd~~~~~---------  166 (398)
                      .+.......           .               ............+..  ...++++++++|+++...         
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~  158 (283)
T d2fnaa2          79 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLP  158 (283)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHH
Confidence            333221100           0               000001112222222  235788999999984321         


Q ss_pred             hHHHHHccCCCCCCCcEEEEEeCChhHHHhc------------CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHH
Q 015918          167 QIEFLIGNLDWFASGSRILITARDKQALINC------------GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIEL  234 (398)
Q Consensus       167 ~~~~l~~~l~~~~~~~~iliTsR~~~~~~~~------------~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~  234 (398)
                      .+..+...    ......+++++........            .....+.|++|+.+++.+++.+.........+.    
T Consensus       159 ~l~~~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----  230 (283)
T d2fnaa2         159 ALAYAYDN----LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----  230 (283)
T ss_dssp             HHHHHHHH----CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----
T ss_pred             HHHHHHHh----hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----
Confidence            12222111    2345555555544322211            134678999999999999998765322222221    


Q ss_pred             HHHHHHHcCCChHHHHHHHHHhcc
Q 015918          235 THEAIKYAQGVPIALKILGRFLFR  258 (398)
Q Consensus       235 ~~~i~~~~~g~Pl~i~~l~~~l~~  258 (398)
                      ++++++.++|+|.+++.++..+..
T Consensus       231 ~~~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         231 YEVVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            678999999999999999876644

>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=99.24  E-value=5.5e-10  Score=98.01  Aligned_cols=203  Identities=12%  Similarity=0.063  Sum_probs=116.1

Q ss_pred             ccCcccccchhHHHHHHHhccC---CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceE-EEeechhhhhcCCHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVG---LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY-FAHNVREAEETGKLADL  121 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~---~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~~  121 (398)
                      .+..++||+.++++|.++|...   ....++.++|+||+|+|||++++.+++.+.......+ ++.    ..........
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~----~~~~~~~~~~   89 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAI   89 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEec----chhhhhhhhh
Confidence            3456899999999999998631   1145678999999999999999999999876654333 333    3344555666


Q ss_pred             HHHHHHHHhcCCCCCCCCcc-chHHHHHhh--CCceEEEEEeCCCChH--hHHHHHccCC----CCCCCcEEEEEeCChh
Q 015918          122 RKELLSTLLNDGNMNKFPNI-GLNFQSKRL--TRKKVLIVFDDVNHPR--QIEFLIGNLD----WFASGSRILITARDKQ  192 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l--~~~~~LlvlDd~~~~~--~~~~l~~~l~----~~~~~~~iliTsR~~~  192 (398)
                      .................... ....+....  .....++++|++++..  ....+.....    .......++.++....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  169 (276)
T d1fnna2          90 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDA  169 (276)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTH
T ss_pred             hhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchh
Confidence            66666655443321111111 222222222  3456677788875422  1111111111    1123344555555443


Q ss_pred             HHHhc-------CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHc---------CCChHHHHHH
Q 015918          193 ALINC-------GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYA---------QGVPIALKIL  252 (398)
Q Consensus       193 ~~~~~-------~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~---------~g~Pl~i~~l  252 (398)
                      .....       .....+.+++.+.++..+++..++..........++..+.+++.+         .|+|..+..+
T Consensus       170 ~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~l  245 (276)
T d1fnna2         170 VLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDI  245 (276)
T ss_dssp             HHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHH
T ss_pred             hhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHH
Confidence            32211       133568899999999999998765321122223345566666553         5777654444

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.23  E-value=2.1e-10  Score=98.03  Aligned_cols=183  Identities=15%  Similarity=0.144  Sum_probs=112.4

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCc-c-eEEEeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFE-G-SYFAHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+++|.+..++.|..++...   ..+.++++||+|+||||+|+.+++.+..++. . ...+.    .+.......+.
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~~---~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n----~~~~~~~~~i~   84 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKDG---NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN----ASDDRGIDVVR   84 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSC---CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC----TTSCCSHHHHH
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcC---CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccc----ccccCCceehh
Confidence            45578999999999999999863   4456889999999999999999988654431 1 22222    22222222222


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hH-HHhcC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QA-LINCG  198 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~-~~~~~  198 (398)
                      ..+..........              ...+.-++|+|+++..  .....+...+......+.+++++... .+ .+..+
T Consensus        85 ~~~~~~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~s  150 (224)
T d1sxjb2          85 NQIKHFAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  150 (224)
T ss_dssp             THHHHHHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             hHHHHHHHhhccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHH
Confidence            2222111111110              1235568999999743  22222222222224456666666543 22 22335


Q ss_pred             CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHH
Q 015918          199 VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALK  250 (398)
Q Consensus       199 ~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~  250 (398)
                      .+..+.+++++.++...++.+.+.....  ....+..+.+++.++|.+....
T Consensus       151 r~~~i~~~~~~~~~i~~~l~~i~~~e~~--~i~~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         151 QCAILRYSKLSDEDVLKRLLQIIKLEDV--KYTNDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTC--CBCHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhhhcccchhhhHHHHHHHHHhccc--CCCHHHHHHHHHHcCCcHHHHH
Confidence            6788999999999999999876632121  2234678999999999987554

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.19  E-value=3.6e-10  Score=97.25  Aligned_cols=190  Identities=10%  Similarity=0.055  Sum_probs=113.0

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC---cceEEEeechhhhhcCCHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF---EGSYFAHNVREAEETGKLADL  121 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f---~~~~~~~~~~~~~~~~~~~~~  121 (398)
                      ..-.+++|.+...+.|..++..   ...+.++++||+|+||||+++.+++.+....   .......    .+........
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~---~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~----~~~~~~~~~~   81 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKS---ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN----ASDERGISIV   81 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTC---TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC----SSSCCCHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHc---CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhee----ccccccchHH
Confidence            4456799999999999999976   3445688999999999999999998853221   1122222    2222222222


Q ss_pred             HHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-hH-HHhc
Q 015918          122 RKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-QA-LINC  197 (398)
Q Consensus       122 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~~-~~~~  197 (398)
                      ... .........    .......+......+.-++|||+++..  .....+...+......+.+++++... .. .+..
T Consensus        82 ~~~-~~~~~~~~~----~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~  156 (237)
T d1sxjd2          82 REK-VKNFARLTV----SKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLA  156 (237)
T ss_dssp             TTH-HHHHHHSCC----CCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHH-HHHHhhhhh----hhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhcccccccccccccccccccccccccc
Confidence            222 222221111    111222333334445558999999743  22333332222224556666665443 11 1122


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA  248 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~  248 (398)
                      +....+.+.+++.++..+++...+.....  ....+..+.+++.++|.+.-
T Consensus       157 sr~~~i~f~~~~~~~~~~~L~~i~~~e~i--~i~~~~l~~ia~~s~gd~R~  205 (237)
T d1sxjd2         157 SQCSKFRFKALDASNAIDRLRFISEQENV--KCDDGVLERILDISAGDLRR  205 (237)
T ss_dssp             HHSEEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHTSSCHHH
T ss_pred             chhhhhccccccccccchhhhhhhhhhcC--cCCHHHHHHHHHHcCCCHHH
Confidence            34578999999999999999887643222  23457789999999988754

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.19  E-value=3.3e-10  Score=96.92  Aligned_cols=182  Identities=13%  Similarity=0.155  Sum_probs=111.8

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEEEeechhhhhcCCHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      ..-.+++|.++.++.|..|+...   ..+.+.++||+|+||||+|+.+++.+.... ...+....   .+...... ...
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~---~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~---~~~~~~~~-~~~   83 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEG---KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRGID-VVR   83 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT---CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCSHH-HHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC---CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEec---ccccCCee-eee
Confidence            45567999999999999999863   344588999999999999999999865432 21122110   11111111 111


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCChh-HHH-hcCC
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDKQ-ALI-NCGV  199 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~~-~~~-~~~~  199 (398)
                      ...........              ....+..++|+|+++..  .....+...+......+.+++++.... +.+ ..+.
T Consensus        84 ~~~~~~~~~~~--------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr  149 (227)
T d1sxjc2          84 NQIKDFASTRQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  149 (227)
T ss_dssp             THHHHHHHBCC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             cchhhcccccc--------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHH
Confidence            11111111110              11234568999999643  333344433333356777777776542 222 2356


Q ss_pred             CeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          200 NKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       200 ~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      +..+.+.+++.++..+++.+.+.....  ....+.++.+++.++|....+
T Consensus       150 ~~~i~~~~~~~~~i~~~l~~I~~~e~i--~i~~~~l~~i~~~s~Gd~R~a  197 (227)
T d1sxjc2         150 CTRFRFQPLPQEAIERRIANVLVHEKL--KLSPNAEKALIELSNGDMRRV  197 (227)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTC--CBCHHHHHHHHHHHTTCHHHH
T ss_pred             Hhhhccccccccccccccccccccccc--cCCHHHHHHHHHHcCCcHHHH
Confidence            788999999999999999887643222  233567899999999986543

>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=99.14  E-value=1.9e-10  Score=99.67  Aligned_cols=149  Identities=17%  Similarity=0.199  Sum_probs=97.1

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEeechhh----hhcCC
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAHNVREA----EETGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~~~~~~----~~~~~  117 (398)
                      ...+||++|++++.+.|..   ...+-++++|++|+|||+++..+++++...      ....+|..+....    .....
T Consensus        18 d~~igRd~Ei~~l~~iL~r---~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~   94 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCR---RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGD   94 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTS---SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSC
T ss_pred             CcccChHHHHHHHHHHHhc---CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchh
Confidence            3589999999999999975   344567799999999999999999985432      2334555422211    11222


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh----------HhHHHHH-ccCCCCCCCcEEEE
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP----------RQIEFLI-GNLDWFASGSRILI  186 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~----------~~~~~l~-~~l~~~~~~~~ili  186 (398)
                      +...+..+                    +...-...++++++|+++..          .+...++ +.+.  ....++|.
T Consensus        95 ~e~r~~~i--------------------~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIg  152 (268)
T d1r6bx2          95 FEKRFKAL--------------------LKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIG  152 (268)
T ss_dssp             HHHHHHHH--------------------HHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEE
T ss_pred             HHHHHHHH--------------------HHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEE
Confidence            22222222                    22223456789999998532          2333343 3443  45678888


Q ss_pred             EeCChhHHHhc-------CCCeeEEcCCCChhhhHHHHHHhh
Q 015918          187 TARDKQALINC-------GVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       187 TsR~~~~~~~~-------~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +|..++.....       ...+.+.+++.+.+++..++....
T Consensus       153 atT~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         153 STTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             EECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             eCCHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            88766554332       256789999999999999997643

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.13  E-value=4.7e-10  Score=96.19  Aligned_cols=181  Identities=15%  Similarity=0.144  Sum_probs=109.2

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc-CcceEE-EeechhhhhcCCHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR-FEGSYF-AHNVREAEETGKLADLR  122 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~-f~~~~~-~~~~~~~~~~~~~~~~~  122 (398)
                      ..-.+++|.+...+.|..|+..   +..+.++|+||+|+||||+|+.+++.+... +....+ +.    .+...... ..
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~---~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n----~s~~~~~~-~~   92 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKT---GSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN----ASDERGIN-VI   92 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHH---TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE----TTCHHHHH-TT
T ss_pred             CCHHHccCcHHHHHHHHHHHHc---CCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEe----cCcccchh-HH
Confidence            4567899999999999999987   445678999999999999999999886433 221111 22    11100000 00


Q ss_pred             HHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hH-HHhcC
Q 015918          123 KELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QA-LINCG  198 (398)
Q Consensus       123 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~-~~~~~  198 (398)
                      ...........              .....++.++++|+++.  ......+...+......+.+++++... .+ ....+
T Consensus        93 ~~~~~~~~~~~--------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~s  158 (231)
T d1iqpa2          93 REKVKEFARTK--------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS  158 (231)
T ss_dssp             HHHHHHHHHSC--------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             HHHHHHHHhhh--------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhC
Confidence            11111111110              01134677999999963  233333333332223445556555443 22 12223


Q ss_pred             CCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          199 VNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       199 ~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      ....+.+.+.+..+....+.+.+....  ....++..+.+++.++|....+
T Consensus       159 R~~~i~~~~~~~~~~~~~l~~~~~~e~--i~i~~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         159 RCAIFRFRPLRDEDIAKRLRYIAENEG--LELTEEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHHTTT--CEECHHHHHHHHHHHTTCHHHH
T ss_pred             ccccccccccchhhHHHHHHHHHHHhC--CCCCHHHHHHHHHHcCCCHHHH
Confidence            567899999999999999988774322  2334577899999999987644

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.12  E-value=1.8e-09  Score=92.99  Aligned_cols=192  Identities=15%  Similarity=0.100  Sum_probs=111.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKE  124 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  124 (398)
                      ..-.+++|.+..++.|..++..+.  -++.++|+||+|+||||+|+.+++.+......  ...       .......+..
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~~~--~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~--~~~-------~~~~~~~~~~   77 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSLGR--IHHAYLFSGTRGVGKTSIARLLAKGLNCETGI--TAT-------PCGVCDNCRE   77 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHTTC--CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCS--CSS-------CCSCSHHHHH
T ss_pred             CCHHHccChHHHHHHHHHHHHcCC--CCeeEEEECCCCCcHHHHHHHHHHHhcCcccc--ccC-------ccccchHHHH
Confidence            344689999999999999997642  34568899999999999999999886443210  000       0000111111


Q ss_pred             HHHHHhcC-CCCCCCCccchHHHHH---hh-----CCceEEEEEeCCCCh--HhHHHHHccCCCCCCCcEEEEEeCCh-h
Q 015918          125 LLSTLLND-GNMNKFPNIGLNFQSK---RL-----TRKKVLIVFDDVNHP--RQIEFLIGNLDWFASGSRILITARDK-Q  192 (398)
Q Consensus       125 i~~~l~~~-~~~~~~~~~~~~~l~~---~l-----~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~~~~~iliTsR~~-~  192 (398)
                      +...-... ...+......++.+..   ..     .++.-++|||+++..  .....|...+...+..+.+|++|.+. .
T Consensus        78 i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          78 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             HHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccc
Confidence            11110000 0000000001111211   11     234568999999753  33344444443335667777776554 2


Q ss_pred             H-HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          193 A-LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       193 ~-~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      + .+..+.+..+.+.+++.++..+.+...+....  ....++.++.+++.++|.+.-+
T Consensus       158 i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~--~~~~~~~l~~i~~~s~Gd~R~a  213 (239)
T d1njfa_         158 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEH--IAHEPRALQLLARAAEGSLRDA  213 (239)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT--CCBCHHHHHHHHHHTTTCHHHH
T ss_pred             cChhHhhhhcccccccCcHHHhhhHHHHHHhhhc--cCCCHHHHHHHHHHcCCCHHHH
Confidence            2 22224678899999999999998887663211  1233567899999999999743

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.12  E-value=3.3e-10  Score=98.42  Aligned_cols=196  Identities=11%  Similarity=0.053  Sum_probs=103.5

Q ss_pred             cccCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeec--hhh----------
Q 015918           45 ETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV--REA----------  112 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~--~~~----------  112 (398)
                      ..-.+++|+++..+.|..++....  ..+.++|+||+|+||||+|+.+++.+.............  ...          
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~~~--~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQPR--DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTT--CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC--CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            345679999999999988886542  345688999999999999999998752221100000000  000          


Q ss_pred             -----------hhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccCCCCC
Q 015918          113 -----------EETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNLDWFA  179 (398)
Q Consensus       113 -----------~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l~~~~  179 (398)
                                 .......................      ....-......+..+++||+++..  .....+...+....
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV------DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cCCccceeeecccccCCcceeeehhhhhhhhhhh------hhhhcccccCCCceEEEeccccccccccchhhhccccccc
Confidence                       00000011111111111100000      000001111234558999999753  22333333332234


Q ss_pred             CCcEEEEEeCChh-H-HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          180 SGSRILITARDKQ-A-LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       180 ~~~~iliTsR~~~-~-~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      ..+++|+||.+.. + .+..+.+..+++.+++.++..+++...+.... .....++..+.+++.+.|.+...
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~-~~~~~~~~l~~i~~~s~Gd~R~a  230 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNER-IQLETKDILKRIAQASNGNLRVS  230 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CEECCSHHHHHHHHHHTTCHHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcC-CCCCcHHHHHHHHHHcCCcHHHH
Confidence            5677777765442 1 12224557899999999999999977652211 11112356788999999998653

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.11  E-value=1.8e-09  Score=95.23  Aligned_cols=202  Identities=12%  Similarity=0.041  Sum_probs=112.3

Q ss_pred             cccCcccccchhHHHHHHHhc----cCCC--CCceEEEEEcCCCccHHHHHHHHHHHhhccC------cceEEEeechhh
Q 015918           45 ETENKLVGVDSRIEEILSLLG----VGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF------EGSYFAHNVREA  112 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~----~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f------~~~~~~~~~~~~  112 (398)
                      ..++.|.||+.++++|.+++.    .+..  +...++.|+||+|+|||++++.+++.+....      ....++.    .
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~----~   88 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----A   88 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----G
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeec----c
Confidence            456789999999999988763    1111  1223466789999999999999999864331      2233333    4


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCCCcc-chHHHHHhh--CCceEEEEEeCCCCh--------HhHHHH---HccCCCC
Q 015918          113 EETGKLADLRKELLSTLLNDGNMNKFPNI-GLNFQSKRL--TRKKVLIVFDDVNHP--------RQIEFL---IGNLDWF  178 (398)
Q Consensus       113 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~-~~~~l~~~l--~~~~~LlvlDd~~~~--------~~~~~l---~~~l~~~  178 (398)
                      ............................. ....+....  .+...++++|.++..        +....+   ...+...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~  168 (287)
T d1w5sa2          89 FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR  168 (287)
T ss_dssp             GGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT
T ss_pred             ccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchh
Confidence            44555666666666665543322111111 223333322  356778889988421        111111   1112111


Q ss_pred             --CCCc-EEEEEeCChhHH--------HhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHc-----
Q 015918          179 --ASGS-RILITARDKQAL--------INCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYA-----  242 (398)
Q Consensus       179 --~~~~-~iliTsR~~~~~--------~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~-----  242 (398)
                        .... .|++++......        ........+.+++++.++..+++..++..........++..+.+++.+     
T Consensus       169 ~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~~~~~  248 (287)
T d1w5sa2         169 DGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKG  248 (287)
T ss_dssp             TSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGT
T ss_pred             hcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHhcccc
Confidence              1223 334444333211        111345788999999999999998776221112223356677777665     


Q ss_pred             -CCChHHHH
Q 015918          243 -QGVPIALK  250 (398)
Q Consensus       243 -~g~Pl~i~  250 (398)
                       .|.|.-+.
T Consensus       249 ~~gd~R~ai  257 (287)
T d1w5sa2         249 GDGSARRAI  257 (287)
T ss_dssp             SCCCHHHHH
T ss_pred             CCCCHHHHH
Confidence             57775433

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=4.8e-10  Score=91.84  Aligned_cols=145  Identities=15%  Similarity=0.127  Sum_probs=91.5

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEeechhhhh-cC---C
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAHNVREAEE-TG---K  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~-~~---~  117 (398)
                      ...+||++|++++.+.|..   ....-++++|++|+|||+++..+++++...      ....+|..+....-. ..   .
T Consensus        22 d~~igRd~Ei~~l~~iL~r---~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~   98 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQR---RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGE   98 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTS---SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHH
T ss_pred             CCCcCcHHHHHHHHHHHhc---cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHH
Confidence            4589999999999999986   334567899999999999999999985432      134455543322211 11   1


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhh-CCceEEEEEeCCCChH----------hHHHHHccCCCCCCCcEEEE
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRL-TRKKVLIVFDDVNHPR----------QIEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlvlDd~~~~~----------~~~~l~~~l~~~~~~~~ili  186 (398)
                      +..-+..                    .+.... ...+++++||+++..-          ..+.+.+.+.  ....++|.
T Consensus        99 ~E~rl~~--------------------il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~Ig  156 (195)
T d1jbka_          99 FEERLKG--------------------VLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVG  156 (195)
T ss_dssp             HHHHHHH--------------------HHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEE
T ss_pred             HHHHHHH--------------------HHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEe
Confidence            1222222                    222222 3457899999995321          1122333333  35667888


Q ss_pred             EeCChhHHHhc-------CCCeeEEcCCCChhhhHHHH
Q 015918          187 TARDKQALINC-------GVNKIYQIKELVHVDALKLL  217 (398)
Q Consensus       187 TsR~~~~~~~~-------~~~~~~~l~~L~~~e~~~Ll  217 (398)
                      +|..++.....       +..+.+.+++.+.+++..++
T Consensus       157 atT~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         157 ATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             cCCHHHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            88766544332       46788999999999887654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.05  E-value=5.6e-09  Score=87.89  Aligned_cols=186  Identities=15%  Similarity=0.148  Sum_probs=108.5

Q ss_pred             cccccccCcccccchhH--HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           41 DDTFETENKLVGVDSRI--EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        41 ~~~~~~~~~fvGR~~el--~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      ++.+.-+..++|...++  ..+.++..... .....+.|+|++|+|||.|+..+++........++|+.    .      
T Consensus         4 n~~~tFdnF~vg~~N~~a~~~~~~~~~~~~-~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~----~------   72 (213)
T d1l8qa2           4 NPKYTLENFIVGEGNRLAYEVVKEALENLG-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS----A------   72 (213)
T ss_dssp             CTTCCSSSCCCCTTTHHHHHHHHHHHHTTT-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE----H------
T ss_pred             CCCCChhhccCCCcHHHHHHHHHHHHhCcC-CCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec----h------
Confidence            34445566778876665  33445554433 34456899999999999999999999887777777765    1      


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh---HhHHH-HHccCCC-CCCCcEEEEEeCChhH
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP---RQIEF-LIGNLDW-FASGSRILITARDKQA  193 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~---~~~~~-l~~~l~~-~~~~~~iliTsR~~~~  193 (398)
                      .++...+...+...         ....+...+.+ --+|+|||++..   ..++. +...+.. ...+..+|+|++..+.
T Consensus        73 ~~~~~~~~~~~~~~---------~~~~~~~~~~~-~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~  142 (213)
T d1l8qa2          73 DDFAQAMVEHLKKG---------TINEFRNMYKS-VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQ  142 (213)
T ss_dssp             HHHHHHHHHHHHHT---------CHHHHHHHHHT-CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGG
T ss_pred             HHHHHHHHHHHHcc---------chhhHHHHHhh-ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcch
Confidence            22222222222111         11112222222 238999999632   22222 2222221 1457789999986532


Q ss_pred             ---------HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHH
Q 015918          194 ---------LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKI  251 (398)
Q Consensus       194 ---------~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~  251 (398)
                               ...+.....+.++ .+.++-.+++.+.+...+..  ..+++++.+++++ .++.-++-
T Consensus       143 ~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~--l~~~v~~yl~~~~-~~~R~L~~  205 (213)
T d1l8qa2         143 KLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLE--LRKEVIDYLLENT-KNVREIEG  205 (213)
T ss_dssp             GCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCC--CCHHHHHHHHHHC-SSHHHHHH
T ss_pred             hccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhc-CcHHHHHH
Confidence                     2222466788886 47777778888777433332  3357788888887 35554443

>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=98.94  E-value=6e-09  Score=90.34  Aligned_cols=192  Identities=14%  Similarity=0.048  Sum_probs=105.8

Q ss_pred             cccCcccccchhHHHHHHHhcc-------------C-CCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeech
Q 015918           45 ETENKLVGVDSRIEEILSLLGV-------------G-LTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVR  110 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~~-------------~-~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~  110 (398)
                      ..-.+++|.+..+++|..++..             . .....+.++++||+|+||||+|+.+++.....   ..++.   
T Consensus        11 ~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~---~~~~~---   84 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD---ILEQN---   84 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE---EEEEC---
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh---hhccc---
Confidence            4457899999999999998843             0 11455789999999999999999999886433   23333   


Q ss_pred             hhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-----HhHHHHHccCCCCCCCcEEE
Q 015918          111 EAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-----RQIEFLIGNLDWFASGSRIL  185 (398)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-----~~~~~l~~~l~~~~~~~~il  185 (398)
                       .+...+... +............  ................+..++++|+++..     ..+..+...... .....++
T Consensus        85 -~~~~~~~~~-~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~-~~~~ii~  159 (253)
T d1sxja2          85 -ASDVRSKTL-LNAGVKNALDNMS--VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-TSTPLIL  159 (253)
T ss_dssp             -TTSCCCHHH-HHHTGGGGTTBCC--STTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-CSSCEEE
T ss_pred             -cccchhhHH-HHHHHHHHhhcch--hhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc-ccccccc
Confidence             222222211 1111111111110  01111111222233457789999998521     112222221110 1222233


Q ss_pred             EEeC-Ch-hHHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          186 ITAR-DK-QALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       186 iTsR-~~-~~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      +++. .. .+.........+.+.+.+.++....+...+.......  .++..+.+++.++|...-+
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i--~~~~l~~i~~~s~GDiR~a  223 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKL--DPNVIDRLIQTTRGDIRQV  223 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC--CTTHHHHHHHHTTTCHHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCC--CHHHHHHHHHhCCCcHHHH
Confidence            3332 22 2233335667899999999999999887663211111  1245788999999987443

>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=98.92  E-value=5.3e-09  Score=95.61  Aligned_cols=149  Identities=15%  Similarity=0.166  Sum_probs=89.7

Q ss_pred             CcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc------CcceEEEeechhhhh----cCC
Q 015918           48 NKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR------FEGSYFAHNVREAEE----TGK  117 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~----~~~  117 (398)
                      ..++||+.|++++.+.|...   ...-++++|++|+|||+++..+++++...      ....+|..+...+-.    ...
T Consensus        22 d~~~gr~~ei~~~~~~L~r~---~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~   98 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRR---TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGE   98 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS---SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------C
T ss_pred             CCCcCcHHHHHHHHHHHhcC---CCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchh
Confidence            45899999999999999753   33445678999999999999999874433      134566553322211    112


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhC-CceEEEEEeCCCChH---------h-HHHHHccCCCCCCCcEEEE
Q 015918          118 LADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLT-RKKVLIVFDDVNHPR---------Q-IEFLIGNLDWFASGSRILI  186 (398)
Q Consensus       118 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~-~~~~LlvlDd~~~~~---------~-~~~l~~~l~~~~~~~~ili  186 (398)
                      +..-+..+                    +..... ..+++|+||+++..-         + ...|.+.+.  ....++|.
T Consensus        99 ~e~r~~~i--------------------~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~  156 (387)
T d1qvra2          99 FEERLKAV--------------------IQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIG  156 (387)
T ss_dssp             HHHHHHHH--------------------HHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEE
T ss_pred             HHHHHHHH--------------------HHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceee
Confidence            22222222                    222223 347899999996431         1 122233332  35567777


Q ss_pred             EeCChhHHHh------cCCCeeEEcCCCChhhhHHHHHHhh
Q 015918          187 TARDKQALIN------CGVNKIYQIKELVHVDALKLLNQCA  221 (398)
Q Consensus       187 TsR~~~~~~~------~~~~~~~~l~~L~~~e~~~Ll~~~~  221 (398)
                      +|...+....      .+.++.+.+++.+.+++..++....
T Consensus       157 ~tT~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         157 ATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             EECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             ecCHHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            7766544332      2367889999999999999987643

>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=98.90  E-value=5.8e-08  Score=81.20  Aligned_cols=178  Identities=12%  Similarity=0.089  Sum_probs=102.5

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhc--
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLN--  131 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~--  131 (398)
                      +...+++.+.+...  .-+..++++||+|+||||+|+.+++.+...-....-.+        .. ...+..+......  
T Consensus         8 ~~~~~~l~~~~~~~--~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~--------~~-~~~~~~i~~~~~~~~   76 (207)
T d1a5ta2           8 RPDFEKLVASYQAG--RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSC--------GH-CRGCQLMQAGTHPDY   76 (207)
T ss_dssp             HHHHHHHHHHHHTT--CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCC--------SC-SHHHHHHHHTCCTTE
T ss_pred             HHHHHHHHHHHHcC--CcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccc--------cc-cchhhhhhhcccccc
Confidence            34567777777653  23556899999999999999999987642211000000        00 0001111111100  


Q ss_pred             --CCCCCCCCccchH---HHHHhh-----CCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCChh-HHH-hc
Q 015918          132 --DGNMNKFPNIGLN---FQSKRL-----TRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDKQ-ALI-NC  197 (398)
Q Consensus       132 --~~~~~~~~~~~~~---~l~~~l-----~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~~-~~~-~~  197 (398)
                        ............+   .+...+     .+++-++|||+++.  ......++..+......+.+|++|.+.. +.+ ..
T Consensus        77 ~~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~  156 (207)
T d1a5ta2          77 YTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (207)
T ss_dssp             EEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             chhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhc
Confidence              0000011111111   122222     23556999999974  3445556555555567788787777652 333 23


Q ss_pred             CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHH
Q 015918          198 GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIAL  249 (398)
Q Consensus       198 ~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i  249 (398)
                      +.+..+.+.+++.++..+.+.... .      ..++.+..+++.++|.|...
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~~~~-~------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLSREV-T------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHC-C------CCHHHHHHHHHHTTTCHHHH
T ss_pred             ceeEEEecCCCCHHHHHHHHHHcC-C------CCHHHHHHHHHHcCCCHHHH
Confidence            567899999999999999997654 1      12466888999999998754

>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=98.87  E-value=4.4e-08  Score=84.94  Aligned_cols=181  Identities=12%  Similarity=0.062  Sum_probs=100.5

Q ss_pred             cccccchhHHHHHHHhcc----------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           49 KLVGVDSRIEEILSLLGV----------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~----------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      +++|-++..++|.+.+..          .....++.++++||+|+|||++++.+++.....   .+.+. ........ .
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~---~~~i~-~~~l~~~~-~   79 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF---FFLIN-GPEIMSKL-A   79 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE---EEEEC-HHHHTTSC-T
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe---EEEEE-chhhcccc-c
Confidence            467777777777775321          011456779999999999999999999875444   12222 11111100 0


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH-------------hHHHHHccC--CCCCCCcE
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR-------------QIEFLIGNL--DWFASGSR  183 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~-------------~~~~l~~~l--~~~~~~~~  183 (398)
                      ......                 ....+...-...|++|+|||++...             ....+....  .....+..
T Consensus        80 g~~~~~-----------------l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vl  142 (258)
T d1e32a2          80 GESESN-----------------LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  142 (258)
T ss_dssp             THHHHH-----------------HHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEE
T ss_pred             ccHHHH-----------------HHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCcc
Confidence            000000                 1112222234678999999995310             111221111  12234555


Q ss_pred             EEEEeCChhHHH-hc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHH-HHHHHH
Q 015918          184 ILITARDKQALI-NC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIA-LKILGR  254 (398)
Q Consensus       184 iliTsR~~~~~~-~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~-i~~l~~  254 (398)
                      ||.||..+.... ..    +....+.++..+.++-.+++...+.+......   .....+++.|.|+--+ |..+++
T Consensus       143 vi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~---~~~~~la~~t~G~s~adl~~lv~  216 (258)
T d1e32a2         143 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAALCS  216 (258)
T ss_dssp             EEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTT---CCHHHHHHHCTTCCHHHHHHHHH
T ss_pred             EEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccc---cchhhhhhcccCCCHHHHHHHHH
Confidence            667887663322 11    24578899999999999999877633221111   1167888999885433 544443

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.83  E-value=4.7e-08  Score=83.70  Aligned_cols=177  Identities=11%  Similarity=0.080  Sum_probs=103.6

Q ss_pred             ccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-.+++|.+...+.|..++....  ....+.++++||+|+||||+|+.+++.+...+   ..++    ........++. 
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~---~~~~----~~~~~~~~~~~-   78 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI---HVTS----GPVLVKQGDMA-   78 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE---EEEE----TTTCCSHHHHH-
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCc---cccc----CcccccHHHHH-
Confidence            34679999999999999885321  13456788999999999999999999875552   2222    11111111111 


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH--h---HHHHHccC---------------CCCCCCcE
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR--Q---IEFLIGNL---------------DWFASGSR  183 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~--~---~~~l~~~l---------------~~~~~~~~  183 (398)
                      .+                     .. ...++..+++|+++...  .   +.......               ......+.
T Consensus        79 ~~---------------------~~-~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (238)
T d1in4a2          79 AI---------------------LT-SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  136 (238)
T ss_dssp             HH---------------------HH-HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             HH---------------------HH-hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeE
Confidence            11                     11 12345677888886321  1   11111110               00122344


Q ss_pred             EEEEeCCh-hH--HHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          184 ILITARDK-QA--LINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       184 iliTsR~~-~~--~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      +|++|... ..  .........+.+++.+.++...++........  ....++.+..+++.++|.+..+..+..
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~l~~i~~~s~gd~R~ai~~l~  208 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD--VEIEDAAAEMIAKRSRGTPRIAIRLTK  208 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CCBCHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc--chhhHHHHHHHHHhCCCCHHHHHHHHH
Confidence            55545443 22  22223456678999999999999987663222  223456789999999999887755443

>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=98.77  E-value=1e-07  Score=81.66  Aligned_cols=178  Identities=15%  Similarity=0.090  Sum_probs=103.2

Q ss_pred             ccCcccccchhHHHHHHHhccCC--CCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHH
Q 015918           46 TENKLVGVDSRIEEILSLLGVGL--TMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRK  123 (398)
Q Consensus        46 ~~~~fvGR~~el~~l~~~L~~~~--~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  123 (398)
                      .-.++||-++..+.|..++....  ....+.++++||+|+||||+|+.+++.....|   .+.+    .+......... 
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~---~~~~----~~~~~~~~~~~-   78 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS----GPAIEKPGDLA-   78 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE---EEEE----TTTCCSHHHHH-
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe---Eecc----CCccccchhhH-
Confidence            44679999999999988875321  13456788999999999999999998865442   2222    11111111111 


Q ss_pred             HHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh--HhHHHHHccC--------C----------CCCCCcE
Q 015918          124 ELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP--RQIEFLIGNL--------D----------WFASGSR  183 (398)
Q Consensus       124 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~--~~~~~l~~~l--------~----------~~~~~~~  183 (398)
                                          ..+... .+...++++|+++..  ..-+.+...+        .          ...+...
T Consensus        79 --------------------~~~~~~-~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          79 --------------------AILANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             --------------------HHHHTT-CCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             --------------------HHHHhh-ccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence                                111111 223447788998632  1111111100        0          0022333


Q ss_pred             EEE-EeCChh--HHHhcCCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChHHHHHHHH
Q 015918          184 ILI-TARDKQ--ALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPIALKILGR  254 (398)
Q Consensus       184 ili-TsR~~~--~~~~~~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl~i~~l~~  254 (398)
                      ++. |++...  .....+....+.+.+.+.++...++.+.+....  .....+....+++.+.|.+.....+.+
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--i~~~~~~l~~ia~~s~gd~R~a~~~l~  209 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLG--VRITEEAALEIGRRSRGTMRVAKRLFR  209 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGC--CCBCHHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhC--CccchHHHHHHHHHcCCCHHHHHHHHH
Confidence            443 444321  122224567888999999999998887663222  223457799999999999876654443

>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=98.71  E-value=1.9e-07  Score=80.13  Aligned_cols=174  Identities=13%  Similarity=0.025  Sum_probs=92.7

Q ss_pred             cccccchhHHHHHHHhc---------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHH
Q 015918           49 KLVGVDSRIEEILSLLG---------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLA  119 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~---------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  119 (398)
                      +++|-++..+.|.+.+.         ......++.++++||+|+|||+||+.+++.....   .+.+. ....       
T Consensus        10 di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~---~~~i~-~~~l-------   78 (247)
T d1ixza_          10 DVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GSDF-------   78 (247)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEE-HHHH-------
T ss_pred             HHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC---EEEEE-hHHh-------
Confidence            56777766665554331         1111445679999999999999999999876433   22332 1111       


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCCC--CCCC
Q 015918          120 DLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLDW--FASG  181 (398)
Q Consensus       120 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~~--~~~~  181 (398)
                        .        ....+ .........+...-...|++|+|||++..             .   .+..|+..+..  ...+
T Consensus        79 --~--------~~~~g-~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  147 (247)
T d1ixza_          79 --V--------EMFVG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA  147 (247)
T ss_dssp             --H--------HSCTT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCC
T ss_pred             --h--------hcccc-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence              0        00000 00000111122223457899999998421             0   12223222211  1234


Q ss_pred             cEEEEEeCChhHH-Hhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH
Q 015918          182 SRILITARDKQAL-INC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       182 ~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                      .-+|.||..+... +.+    .....+++++.+.++-.++++..+........   .....+++.|.|..-
T Consensus       148 vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~---~~~~~la~~t~g~s~  215 (247)
T d1ixza_         148 IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFVG  215 (247)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCH
T ss_pred             EEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccc---cCHHHHHHHCCCCCH
Confidence            4444566654322 211    23468999999999999999877633221111   115677788877543

>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=98.69  E-value=7.2e-08  Score=83.14  Aligned_cols=174  Identities=11%  Similarity=0.008  Sum_probs=95.6

Q ss_pred             CcccccchhHHHHHHHhc---c------CCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           48 NKLVGVDSRIEEILSLLG---V------GLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~---~------~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      .+++|-++..++|.+.+.   .      .....++.++++||+|+|||++|+.+++.+...   .+.+. .......   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~---~~~i~-~~~l~~~---   84 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP---FFTIS-GSDFVEM---   84 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC---EEEEC-SCSSTTS---
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC---EEEEE-hHHhhhc---
Confidence            467777777766655431   1      011446779999999999999999999887433   22222 1111000   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCCh-------------H---hHHHHHccCC--CCCC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHP-------------R---QIEFLIGNLD--WFAS  180 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~-------------~---~~~~l~~~l~--~~~~  180 (398)
                                    ... ..+......+...-...|++|+|||++..             .   .+..++..+.  ....
T Consensus        85 --------------~~g-~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  149 (256)
T d1lv7a_          85 --------------FVG-VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE  149 (256)
T ss_dssp             --------------CCC-CCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSS
T ss_pred             --------------chh-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence                          000 00111122233333567899999998420             1   1222332221  1233


Q ss_pred             CcEEEEEeCChhHH-Hhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCCh
Q 015918          181 GSRILITARDKQAL-INC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVP  246 (398)
Q Consensus       181 ~~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  246 (398)
                      +..+|.||..+... +.+    .....+.+++.+.++-.+++............   .....+++.+.|..
T Consensus       150 ~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~---~~~~~la~~t~G~s  217 (256)
T d1lv7a_         150 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFS  217 (256)
T ss_dssp             CEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCC
T ss_pred             CEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcc---cCHHHHHHhCCCCC
Confidence            45566677665322 211    23578999999999999999877633222111   12567788888754

>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=98.69  E-value=7.4e-08  Score=83.76  Aligned_cols=174  Identities=13%  Similarity=0.078  Sum_probs=93.6

Q ss_pred             cccccchhHHHHHHHhc----------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCH
Q 015918           49 KLVGVDSRIEEILSLLG----------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKL  118 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~----------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  118 (398)
                      +++|-++..++|.+.+.          .......+.++++||+|+|||+||+.+++.+.-.    ++......       
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~-------   76 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPE-------   76 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHH-------
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHH-------
Confidence            35666666555555432          0111456789999999999999999999887443    22221111       


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChH----------------hHHHHHccCCCC--CC
Q 015918          119 ADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPR----------------QIEFLIGNLDWF--AS  180 (398)
Q Consensus       119 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~----------------~~~~l~~~l~~~--~~  180 (398)
                                +...... .........+...-...|++|+|||++...                ....++..+...  .+
T Consensus        77 ----------l~~~~~~-~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  145 (265)
T d1r7ra3          77 ----------LLTMWFG-ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  145 (265)
T ss_dssp             ----------HHTSCTT-THHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------
T ss_pred             ----------hhhcccc-chHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCC
Confidence                      1111000 111112222223334678999999995210                123344444321  33


Q ss_pred             CcEEEEEeCChhHH-Hhc----CCCeeEEcCCCChhhhHHHHHHhhcCCCCCCcchHHHHHHHHHHcCCChH
Q 015918          181 GSRILITARDKQAL-INC----GVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAIKYAQGVPI  247 (398)
Q Consensus       181 ~~~iliTsR~~~~~-~~~----~~~~~~~l~~L~~~e~~~Ll~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  247 (398)
                      +..+|.||..+... +.+    .....+++++.+.++-.++++..+........   .....+++.+.|...
T Consensus       146 ~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~---~~l~~la~~t~g~s~  214 (265)
T d1r7ra3         146 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKD---VDLEFLAKMTNGFSG  214 (265)
T ss_dssp             CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----C---CCCHHHHHHHCSSCC
T ss_pred             CEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhh---hhHHHHHhcCCCCCH
Confidence            45566677655322 111    24467899999999999999876532111111   115667778776553

>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=98.66  E-value=1.6e-06  Score=74.12  Aligned_cols=52  Identities=15%  Similarity=0.059  Sum_probs=38.5

Q ss_pred             CcccccchhHHHHHHHhc-------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           48 NKLVGVDSRIEEILSLLG-------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        48 ~~fvGR~~el~~l~~~L~-------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++|+.+.++.+.+-..       .......+.|+++||+|+|||++|+.+++.....
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            348888888777666543       1111345779999999999999999999886443

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.09  E-value=7.6e-05  Score=63.39  Aligned_cols=46  Identities=26%  Similarity=0.304  Sum_probs=38.0

Q ss_pred             cccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           49 KLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +|||....++++.+.+.... .....|+|+|++|+|||++|+.+...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a-~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKIS-CAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHT-TCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHh-CCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            58999999999999887544 33445789999999999999998765

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.05  E-value=1.5e-05  Score=65.42  Aligned_cols=138  Identities=9%  Similarity=0.027  Sum_probs=81.2

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc---CcceEEEeechhhhhcCCHHHHHHHHHHHHhcC
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR---FEGSYFAHNVREAEETGKLADLRKELLSTLLND  132 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~---f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~  132 (398)
                      +++.+..++..   .....+.++|++|+|||++|..+.+.+...   .+...++..   ........++. ++...+...
T Consensus         2 ~~~~l~~~i~~---~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~---~~~~I~Id~IR-~i~~~~~~~   74 (198)
T d2gnoa2           2 QLETLKRIIEK---SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDP---EGENIGIDDIR-TIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHHT---CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECC---SSSCBCHHHHH-HHHHHHTSC
T ss_pred             HHHHHHHHHhc---CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeC---CcCCCCHHHHH-HHHHHHhhC
Confidence            56677777775   567899999999999999999999875333   345555541   01112333332 233333222


Q ss_pred             CCCCCCCccchHHHHHhhCCceEEEEEeCCCC--hHhHHHHHccCCCCCCCcEEEEEeCCh-hHHHh-cCCCeeEEcCCC
Q 015918          133 GNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNH--PRQIEFLIGNLDWFASGSRILITARDK-QALIN-CGVNKIYQIKEL  208 (398)
Q Consensus       133 ~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~--~~~~~~l~~~l~~~~~~~~iliTsR~~-~~~~~-~~~~~~~~l~~L  208 (398)
                      ..                .+++-++|||+++.  ......|+..+-..++.+.+|++|.+. .+.+. .+.+..+.+.+.
T Consensus        75 ~~----------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          75 PE----------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             CS----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             cc----------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence            11                23445999999974  445566666555445677776666554 23222 245677777643


Q ss_pred             ChhhhHHHHH
Q 015918          209 VHVDALKLLN  218 (398)
Q Consensus       209 ~~~e~~~Ll~  218 (398)
                        .+..++..
T Consensus       139 --~~~~~~~~  146 (198)
T d2gnoa2         139 --KEFRDLVK  146 (198)
T ss_dssp             --HHHHHHHH
T ss_pred             --hHHHHHHH
Confidence              33444443

>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=97.84  E-value=4.3e-05  Score=67.49  Aligned_cols=60  Identities=20%  Similarity=0.208  Sum_probs=44.2

Q ss_pred             HHHHHHhccccccccCcccccchhHHHHHHHhc------cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           33 VSEVLERLDDTFETENKLVGVDSRIEEILSLLG------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        33 ~~~~~~~l~~~~~~~~~fvGR~~el~~l~~~L~------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ..++.+.|...      ++|.+..++.+...+.      ...+....+++++||+|+|||.||+.+++.+..
T Consensus        13 l~~l~~~L~~~------viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~   78 (315)
T d1r6bx3          13 LKNLGDRLKML------VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI   78 (315)
T ss_dssp             HHHHHHHHTTT------SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCe------ecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC
Confidence            34555555555      9999999999988763      111123457889999999999999999988643

>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=97.79  E-value=0.0001  Score=58.88  Aligned_cols=25  Identities=32%  Similarity=0.534  Sum_probs=22.4

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      |+|+||+|+|||||++.++..+...
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            7899999999999999999986544

>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=97.75  E-value=3.8e-05  Score=67.69  Aligned_cols=51  Identities=20%  Similarity=0.186  Sum_probs=36.3

Q ss_pred             cccccchhHHHHHHHhcc------CCC-----CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           49 KLVGVDSRIEEILSLLGV------GLT-----MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~~------~~~-----~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++|.++..+.+...+..      ...     ...+.++++||+|+|||.||+.+++.....
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~   76 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   76 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCC
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccc
Confidence            477888877777654410      000     245678899999999999999999886443

>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=97.73  E-value=2.6e-05  Score=63.59  Aligned_cols=51  Identities=22%  Similarity=0.182  Sum_probs=35.4

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.|..........++-+|+|.|++|+||||||+.+.+.+...........
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhccccccceecc
Confidence            444444443333256667889999999999999999988776654444443

>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=97.72  E-value=5.3e-05  Score=66.78  Aligned_cols=51  Identities=22%  Similarity=0.248  Sum_probs=37.7

Q ss_pred             cccccchhHHHHHHHhc----cCCC-C-CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           49 KLVGVDSRIEEILSLLG----VGLT-M-DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~----~~~~-~-~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++|.+..++.+...+.    +..+ . ...+++++||+|+|||.+|+.+++.+...
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~   80 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT   80 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC
Confidence            48899988888877553    1111 2 23477899999999999999999987443

>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=97.65  E-value=1.6e-05  Score=64.13  Aligned_cols=29  Identities=21%  Similarity=0.101  Sum_probs=25.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      +.|+|+|++|+|||||++++++.+..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~~   30 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSGV   30 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTTC
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCCC
Confidence            57899999999999999999999765543

>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=97.62  E-value=2.5e-05  Score=62.04  Aligned_cols=35  Identities=17%  Similarity=0.131  Sum_probs=28.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      .++++|+|++|+|||||+.++.+.+..+.-.+..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~   36 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLI   36 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEe
Confidence            36899999999999999999999977665434333

>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=97.59  E-value=1.6e-05  Score=64.21  Aligned_cols=27  Identities=15%  Similarity=0.187  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      -++.|+|.|++|+||||||+.+++.+.
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999998753

>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=97.58  E-value=3e-05  Score=62.13  Aligned_cols=37  Identities=19%  Similarity=0.145  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEEE
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYFA  106 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~~  106 (398)
                      .+..+|.|+|++|+||||+|+.+++++...+ ....+.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~   41 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLL   41 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhh
Confidence            3457888999999999999999999986654 333343

>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=97.54  E-value=1.8e-05  Score=62.52  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.|+|+|++|+||||+|+.+++++
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999886

>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=97.53  E-value=4.2e-05  Score=65.86  Aligned_cols=30  Identities=23%  Similarity=0.329  Sum_probs=25.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..++.++++||+|+||||||+.++..+...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            456789999999999999999999887544

>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=97.51  E-value=2.9e-05  Score=63.28  Aligned_cols=37  Identities=22%  Similarity=0.286  Sum_probs=30.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..+|.++|++|+||||+|+.+++.+...+....++.
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            4568889999999999999999999877766555543

>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=97.51  E-value=2.8e-05  Score=60.63  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++|+|+|++|+||||+|+.++..
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58899999999999999988654

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.50  E-value=0.00021  Score=56.99  Aligned_cols=26  Identities=15%  Similarity=0.195  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.+.+|+++|++|+||||+|+.++..
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            56789999999999999999988654

>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=97.48  E-value=2.6e-05  Score=62.14  Aligned_cols=24  Identities=25%  Similarity=0.291  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++|+|+|++|+||||+|+.+++.+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            689999999999999999998765

>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=97.48  E-value=2.8e-05  Score=62.10  Aligned_cols=28  Identities=21%  Similarity=0.209  Sum_probs=24.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .++|+|+|++|+||||+|+.+++.+...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~   30 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEP   30 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            5799999999999999999999886543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=97.44  E-value=0.00015  Score=63.51  Aligned_cols=29  Identities=21%  Similarity=0.217  Sum_probs=24.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      .+++++||||+|||.||+.++..+..+++
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~  152 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDK  152 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSC
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCC
Confidence            45667999999999999999999765543

>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=97.44  E-value=4.4e-05  Score=60.72  Aligned_cols=28  Identities=25%  Similarity=0.420  Sum_probs=25.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...++++|.|++|+||||+|+.+++++.
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            5678999999999999999999998863

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.40  E-value=7.2e-05  Score=60.23  Aligned_cols=34  Identities=15%  Similarity=0.158  Sum_probs=27.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ++|+|.|++|+||||+++.+.+.+.........+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~~   35 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMV   35 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEE
Confidence            6899999999999999999999987665443333

>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=97.39  E-value=3.8e-05  Score=61.09  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ..|+|+|++|+||||+|+.+++++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999876

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.39  E-value=0.00034  Score=57.22  Aligned_cols=38  Identities=18%  Similarity=0.135  Sum_probs=31.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++.+++.++||.|+||||.+.+++.++..+-..+.+++
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit   41 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA   41 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            56789999999999999999999988776666666665

>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=97.38  E-value=0.00034  Score=57.41  Aligned_cols=29  Identities=17%  Similarity=0.086  Sum_probs=24.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +.+|+++|.||+||||+|+++++.+....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~   30 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIG   30 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            35788999999999999999998876544

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.35  E-value=6e-05  Score=61.45  Aligned_cols=27  Identities=15%  Similarity=0.142  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +++.+|+|.||+|+||||+|+.+++++
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            567899999999999999999998875

>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=97.28  E-value=0.0003  Score=57.77  Aligned_cols=38  Identities=18%  Similarity=0.226  Sum_probs=31.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .++.++.++||.|+||||.+.+++.++..+...+..++
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEe
Confidence            56788999999999999999999988776666666665

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.28  E-value=7.2e-05  Score=59.54  Aligned_cols=27  Identities=26%  Similarity=0.337  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++.-.|+|.|++|+||||+++.+++++
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            455679999999999999999998774

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.27  E-value=0.0004  Score=56.96  Aligned_cols=38  Identities=16%  Similarity=0.101  Sum_probs=27.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+.++.++||+|+||||.+.+++.+++.+-..+..+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   47 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG   47 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEE
Confidence            46788999999999999999999988776655566665

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.27  E-value=0.00012  Score=57.97  Aligned_cols=34  Identities=15%  Similarity=0.018  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      +++.|+|.+|+|||||+.++...++.+...+..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            5789999999999999999999988765444444

>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=97.24  E-value=0.00052  Score=56.17  Aligned_cols=38  Identities=21%  Similarity=0.317  Sum_probs=30.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..+.++.++||.|+||||.+.+++.+++.+-..+..+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   44 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAA   44 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            56789999999999999999999988776555444444

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.22  E-value=6.3e-05  Score=59.99  Aligned_cols=26  Identities=31%  Similarity=0.238  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++|+|.|++|+||||+|+.+++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999987653

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.22  E-value=9.7e-05  Score=60.28  Aligned_cols=27  Identities=15%  Similarity=0.153  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +..++|+|.||+|+||||+|+.+++++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            578899999999999999999998875

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.22  E-value=0.00042  Score=56.71  Aligned_cols=38  Identities=18%  Similarity=0.132  Sum_probs=31.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...+++.++||+|+||||.+.+++.++..+...+..++
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit   45 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA   45 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            45678999999999999999999988877766666554

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.21  E-value=8.1e-05  Score=60.31  Aligned_cols=32  Identities=25%  Similarity=0.345  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceE
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSY  104 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~  104 (398)
                      +.|+|+||+|+|||||++.+++.....|...+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~~~~   33 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFGFSV   33 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEEECC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcceeEEE
Confidence            56899999999999999999988766654333

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.21  E-value=0.00018  Score=60.58  Aligned_cols=48  Identities=19%  Similarity=0.263  Sum_probs=38.9

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|-+.|.++- +...++.|+|++|+|||+||.+++.....+...+.|++
T Consensus        14 ~LD~~l~GGi-~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          14 RLDEMCGGGF-FKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHHTTSSE-ESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHHhhcCCC-cCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            3455555444 67789999999999999999999999877777788876

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.20  E-value=0.00017  Score=58.08  Aligned_cols=35  Identities=17%  Similarity=0.111  Sum_probs=28.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++++|.|++|+||||+++.+++.+..+.-....+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~   36 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIIN   36 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            57899999999999999999999876654444443

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.11  E-value=0.00011  Score=58.42  Aligned_cols=25  Identities=16%  Similarity=0.248  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +.|+|.|++|+||||+++.+++++.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            4577889999999999999998863

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.09  E-value=0.00013  Score=57.82  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=21.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      |++.|++|+||||+++.+++++.-.
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            4566999999999999999887443

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.04  E-value=0.00048  Score=60.57  Aligned_cols=49  Identities=18%  Similarity=0.224  Sum_probs=34.5

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ..++.+.+.... .+..+|+|+|+||+|||||...++..+......+..+
T Consensus        37 ~~~~~~~~~~~~-~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaVi   85 (323)
T d2qm8a1          37 VRDLIDAVLPQT-GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVL   85 (323)
T ss_dssp             HHHHHHHHGGGC-CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHhhhcc-CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeee
Confidence            344444444333 6778999999999999999999998865544333333

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.04  E-value=0.00013  Score=59.24  Aligned_cols=27  Identities=26%  Similarity=0.437  Sum_probs=23.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      .|+|.||+|+|||||++.+++.....|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            588999999999999999998876654

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.03  E-value=0.00068  Score=57.74  Aligned_cols=82  Identities=18%  Similarity=0.167  Sum_probs=52.8

Q ss_pred             chHHHHHHHHHHHHhccccc-----cccCccccc-chhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           25 ESKLIEEIVSEVLERLDDTF-----ETENKLVGV-DSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        25 ~~~~i~~~~~~~~~~l~~~~-----~~~~~fvGR-~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..+.++....++..+.....     ......+.+ ..-...|-..|. +.- +..+++-|+|++|+|||+||.+++....
T Consensus         7 ~~k~~~~~~~~i~k~~g~~~i~~~~~~~~~~~~~i~TG~~~lD~~lg~gG~-~~g~i~e~~G~~~~GKT~l~l~~~~~~q   85 (269)
T d1mo6a1           7 REKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGL-PRGRVIEIYGPESSGKTTVALHAVANAQ   85 (269)
T ss_dssp             HHHHHHHHHHHHHHHHCTTSSCCTTCCCCCCSCCBCCSCHHHHHHTSSSSB-CSSSEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCcceEECCCccCCccceEccCCHHHHHhhccCCc-ccceeEEEecCCCcHHHHHHHHHHHHHh
Confidence            34556666677777654211     111112222 111334455554 333 7789999999999999999999998877


Q ss_pred             ccCcceEEEe
Q 015918           98 RRFEGSYFAH  107 (398)
Q Consensus        98 ~~f~~~~~~~  107 (398)
                      .....++|+.
T Consensus        86 ~~g~~~vyID   95 (269)
T d1mo6a1          86 AAGGVAAFID   95 (269)
T ss_dssp             HTTCEEEEEE
T ss_pred             cCCCEEEEEE
Confidence            7777788887

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.01  E-value=0.0017  Score=53.80  Aligned_cols=25  Identities=20%  Similarity=0.239  Sum_probs=21.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .+..+++|.|++|+|||||++.++.
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          29 KEGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             cCCCEEEEECCCCCCcchhhHhccC
Confidence            3456899999999999999997765

>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=97.00  E-value=0.00041  Score=60.40  Aligned_cols=47  Identities=23%  Similarity=0.158  Sum_probs=34.3

Q ss_pred             chhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           54 DSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        54 ~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      ...-.....+|.......+-+|+|.|++|+||||+|+.+...+...+
T Consensus        62 ~~~~~~~~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          62 LRRQAVLEQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             HHHHHHHHHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             HHHHHHHHHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            33444455566554435678999999999999999999998886543

>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=96.99  E-value=0.00017  Score=56.77  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+++.+++.+
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999987

>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=96.98  E-value=0.00052  Score=60.40  Aligned_cols=48  Identities=23%  Similarity=0.192  Sum_probs=35.5

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++...+.... ++..+|+|+|+||+|||||...++..+..+...+..+.
T Consensus        42 ~ll~~~~~~~-~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavla   89 (327)
T d2p67a1          42 QLLDAIMPYC-GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   89 (327)
T ss_dssp             HHHHHHGGGC-SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhhhcc-CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeec
Confidence            4444443333 67899999999999999999999988777654444443

>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=96.98  E-value=0.00023  Score=57.83  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.+|+|.||+|+||||.|+.+++.+
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            3578999999999999999999875

>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=96.97  E-value=0.00052  Score=59.06  Aligned_cols=49  Identities=18%  Similarity=0.251  Sum_probs=37.7

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++..+.+.+..   ++.++|+++|-||+||||++..++..+......+..+.
T Consensus         7 ~~~~~~~~~~~---~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD   55 (279)
T d1ihua2           7 SLSALVDDIAR---NEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTT   55 (279)
T ss_dssp             CHHHHHHHHHT---TSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cHHHHHHHhhc---CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            34555555554   67899999999999999999999988777655555554

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.96  E-value=0.00018  Score=57.69  Aligned_cols=32  Identities=28%  Similarity=0.427  Sum_probs=26.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcce
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGS  103 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~  103 (398)
                      .+.|+|+||+|+|||||++.+++.....|...
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~   34 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPDRFAYP   34 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTTTEECC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCcCeeec
Confidence            36799999999999999999998766665433

>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=96.94  E-value=0.00021  Score=57.79  Aligned_cols=25  Identities=24%  Similarity=0.163  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +-.|+|.||+|+||||+|..+++++
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            3458899999999999999998775

>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=96.94  E-value=0.0015  Score=55.63  Aligned_cols=81  Identities=22%  Similarity=0.176  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHHHHhccccc-----cccCcccc-cchhHHHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           26 SKLIEEIVSEVLERLDDTF-----ETENKLVG-VDSRIEEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        26 ~~~i~~~~~~~~~~l~~~~-----~~~~~fvG-R~~el~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .+.++.+..++......-.     .....-+. -..-...|-..|. +.- +..+++-|+|++|+|||+||.+++.....
T Consensus         5 ~~~~~~~~~~i~k~~g~~~~~~~~~~~~~~~~~i~TGs~~lD~~Lg~GGi-p~g~itei~G~~~sGKT~l~l~~~~~aqk   83 (268)
T d1xp8a1           5 SKAIETAMSQIEKAFGKGSIMKLGAESKLDVQVVSTGSLSLDLALGVGGI-PRGRITEIYGPESGGKTTLALAIVAQAQK   83 (268)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTSCCCCCCCEECCSCHHHHHHTSSSSE-ETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcceEECCCcCCCCCCeEcCCCHHHHHHhcCCCc-cCceEEEEecCCccchHHHHHHHHHHHHh
Confidence            4567777788877764311     11111111 1112334555554 322 56789999999999999999999988766


Q ss_pred             cCcceEEEe
Q 015918           99 RFEGSYFAH  107 (398)
Q Consensus        99 ~f~~~~~~~  107 (398)
                      .-..++|+.
T Consensus        84 ~g~~v~yiD   92 (268)
T d1xp8a1          84 AGGTCAFID   92 (268)
T ss_dssp             TTCCEEEEE
T ss_pred             CCCEEEEEE
Confidence            666678887

>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=96.92  E-value=0.00025  Score=58.79  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++|+|.||+|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999999886

>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=96.92  E-value=0.00039  Score=57.17  Aligned_cols=30  Identities=17%  Similarity=0.257  Sum_probs=26.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .+..+|.++|.+|+||||+|+.+.+.+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~   51 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRD   51 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            567899999999999999999999886543

>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=96.90  E-value=0.0017  Score=57.86  Aligned_cols=37  Identities=19%  Similarity=0.083  Sum_probs=26.6

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .....+...+.      .++++|+|++|+||||++..+...+.
T Consensus       152 ~Q~~A~~~al~------~~~~vI~G~pGTGKTt~i~~~l~~l~  188 (359)
T d1w36d1         152 WQKVAAAVALT------RRISVISGGPGTGKTTTVAKLLAALI  188 (359)
T ss_dssp             HHHHHHHHHHT------BSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc------CCeEEEEcCCCCCceehHHHHHHHHH
Confidence            34444554443      36899999999999999987766543

>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=96.88  E-value=0.00027  Score=57.45  Aligned_cols=27  Identities=19%  Similarity=0.130  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.++|+|.||||+||||+|+.+++.+
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998864

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.85  E-value=0.00076  Score=56.01  Aligned_cols=26  Identities=15%  Similarity=0.139  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+..+++|.||.|+|||||++.++.-
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcC
Confidence            34568999999999999999988753

>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=96.80  E-value=0.00034  Score=55.97  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.+++++
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            7799999999999999998875

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.78  E-value=0.0011  Score=55.87  Aligned_cols=37  Identities=27%  Similarity=0.380  Sum_probs=29.4

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      |-.+|.+.- +..+++.|+|++|+|||+|+.+++....
T Consensus        25 LD~ll~GGl-p~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGI-ETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSE-ESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCc-cCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            344444433 6778999999999999999999998754

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.78  E-value=0.0024  Score=53.09  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.+..-
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcC
Confidence            44568999999999999999998864

>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=96.77  E-value=0.00058  Score=61.05  Aligned_cols=30  Identities=20%  Similarity=0.102  Sum_probs=26.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++.+.++++||||+|||++|..+++.+...
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            677899999999999999999999987654

>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=96.75  E-value=0.0031  Score=57.07  Aligned_cols=118  Identities=8%  Similarity=0.054  Sum_probs=66.2

Q ss_pred             cccc-hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHH
Q 015918           51 VGVD-SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTL  129 (398)
Q Consensus        51 vGR~-~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l  129 (398)
                      .|-. ..++.+.+++.    .....|+|+||.|+||||++..+.+.+......++-+.+.-+    ......     .+.
T Consensus       140 LG~~~~~~~~l~~l~~----~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE----~~~~~~-----~q~  206 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK----RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIE----FDIDGI-----GQT  206 (401)
T ss_dssp             SCCCHHHHHHHHHHHT----SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCC----SCCSSS-----EEE
T ss_pred             hcccHHHHHHHHHHHh----hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcc----cccCCC-----Cee
Confidence            3444 34445555554    455899999999999999999999986543332222221100    000000     000


Q ss_pred             hcCCCCCCCCccchHHHHHhhCCceEEEEEeCCCChHhHHHHHccCCCCCCCcEEEEEe
Q 015918          130 LNDGNMNKFPNIGLNFQSKRLTRKKVLIVFDDVNHPRQIEFLIGNLDWFASGSRILITA  188 (398)
Q Consensus       130 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlvlDd~~~~~~~~~l~~~l~~~~~~~~iliTs  188 (398)
                         .............+...++..|=+|++.++.+.+.........    ...++++||
T Consensus       207 ---~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~aa----~tGhlV~tT  258 (401)
T d1p9ra_         207 ---QVNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAVQAS----LTGHLVMST  258 (401)
T ss_dssp             ---ECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHHH----HTTCEEEEE
T ss_pred             ---eecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHHH----hcCCeEEEE
Confidence               0000111125667777788888899999998887665554442    233455555

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.75  E-value=0.00041  Score=55.68  Aligned_cols=25  Identities=20%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++|+|.||+|+|||||++.+.+...
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            5899999999999999999887754

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.73  E-value=0.00042  Score=55.51  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=20.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+|+.+++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999999999886

>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=96.73  E-value=0.0005  Score=56.65  Aligned_cols=28  Identities=14%  Similarity=0.325  Sum_probs=23.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +-+|+|.|++|+||||+++.+.+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            3478999999999999999999886543

>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=96.70  E-value=0.00054  Score=55.29  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.++| |.||+|+||||+|+.+++++
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            34555 67999999999999999875

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.69  E-value=0.00047  Score=55.30  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .|+|.|++|+||||+|+.+++++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999999886

>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=96.69  E-value=0.00049  Score=57.03  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=21.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHh
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +|+|-||+|+||||+|+.++.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57789999999999999999886

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.66  E-value=0.00099  Score=57.65  Aligned_cols=38  Identities=26%  Similarity=0.206  Sum_probs=32.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.+++++++|-||+||||++..++..+.++...+..+.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            56789999999999999999999999877766666655

>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=96.65  E-value=0.0056  Score=52.27  Aligned_cols=30  Identities=13%  Similarity=0.130  Sum_probs=25.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..+-+|+|.|++|+|||||+..+...+.++
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence            455688999999999999999998887554

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.0022  Score=52.48  Aligned_cols=35  Identities=9%  Similarity=0.106  Sum_probs=28.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      ...|+|.|+.|+||||+++.+.+.+..+.-.+.++
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            36789999999999999999999987665444444

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.00075  Score=55.46  Aligned_cols=40  Identities=23%  Similarity=0.192  Sum_probs=29.8

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      .|-..|.+.- ....++.|.|++|+|||+||.+++......
T Consensus        11 ~LD~ll~GGi-~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          11 ELDKLLQGGI-ETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHHTTTSE-ETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHHhhcCCC-cCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            3444454333 567899999999999999999999875433

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.59  E-value=0.00073  Score=54.57  Aligned_cols=26  Identities=19%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +.-.|+|.||||+||||+|+.+++++
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            44456678999999999999999874

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.57  E-value=0.00063  Score=54.40  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.+++.+
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            5577999999999999999875

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.51  E-value=0.001  Score=55.68  Aligned_cols=28  Identities=25%  Similarity=0.461  Sum_probs=23.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      +++|.|++|+|||||+..+.+.......
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            6899999999999999999987655443

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.0007  Score=54.02  Aligned_cols=22  Identities=23%  Similarity=0.202  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHHh
Q 015918           75 LGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      |+|.|++|+||||+|+.+++++
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            6789999999999999998775

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00092  Score=54.69  Aligned_cols=25  Identities=16%  Similarity=0.218  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ++++|+||+|+|||||...++....
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            5899999999999999999988754

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.0014  Score=55.20  Aligned_cols=38  Identities=24%  Similarity=0.274  Sum_probs=29.9

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .|-.+|.+.- +..+++.|+|++|+|||+||.+++....
T Consensus        25 ~LD~~lgGGi-p~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          25 EFDKLLGGGI-ESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             HHHHHTTSSB-CSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             HHHHhhcCCC-cCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444555444 7778999999999999999999998643

>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=96.33  E-value=0.0067  Score=45.55  Aligned_cols=35  Identities=11%  Similarity=0.010  Sum_probs=25.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ...++.+|++|.|+|||+++..++..   ....+.++.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~---~~~~vli~~   40 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA---QGYKVLVLN   40 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT---TTCCEEEEE
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH---cCCcEEEEc
Confidence            45688999999999999988766543   223355544

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.31  E-value=0.00076  Score=59.72  Aligned_cols=47  Identities=17%  Similarity=0.152  Sum_probs=33.9

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      =..++|.+.....|.-.+..   .+...++|.|++|+|||+||+.+..-+
T Consensus         6 f~~I~Gq~~~kral~laa~~---~~~h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVD---PGIGGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHC---GGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhhccCcHHHHHHHHHHHhc---cCCCeEEEECCCCccHHHHHHHHHHhC
Confidence            35679998766655433321   223468999999999999999998753

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.31  E-value=0.00079  Score=56.40  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=28.6

Q ss_pred             HHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           58 EEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        58 ~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..|-..|.+.- +..+++.|+|++|+|||+|+.+++..
T Consensus        21 ~~LD~ll~GGi-~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          21 KNLDTLLGGGV-ETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             HHHHHHHTSSE-ESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             HHHHhhhCCCC-cCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            34445555433 56789999999999999999999865

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.0024  Score=54.21  Aligned_cols=49  Identities=22%  Similarity=0.202  Sum_probs=38.7

Q ss_pred             HHHHHHhc-cCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           58 EEILSLLG-VGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        58 ~~l~~~L~-~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ..|-..|. +.- +..+++.|+|++|+||||||.+++......-..++|+.
T Consensus        40 ~~lD~~Lg~GGi-~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          40 LSLDIALGAGGL-PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             HHHHHHTSSSSE-ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhcCCCc-cCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            34555564 322 56689999999999999999999999877777788887

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.24  E-value=0.00092  Score=55.64  Aligned_cols=48  Identities=21%  Similarity=0.085  Sum_probs=32.7

Q ss_pred             HHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh-hccCcceEEEe
Q 015918           59 EILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI-SRRFEGSYFAH  107 (398)
Q Consensus        59 ~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~-~~~f~~~~~~~  107 (398)
                      .|-+.|.++- +...++.|+|++|+|||+||.+++... ...-..+.|+.
T Consensus        14 ~LD~~l~GGi-~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          14 GFDDISHGGL-PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             THHHHTTSSE-ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHHhhcCCC-cCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            3445554433 567899999999999999999987653 33333455554

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.23  E-value=0.0023  Score=54.57  Aligned_cols=35  Identities=20%  Similarity=0.325  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.|+|+|-||+||||++..++..+......+..+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID   36 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            57889999999999999999999887755555554

>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=96.21  E-value=0.015  Score=49.11  Aligned_cols=36  Identities=31%  Similarity=0.488  Sum_probs=27.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhc-cCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISR-RFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~-~f~~~~~~  106 (398)
                      +.+.++|.|.+|+|||+|+.++++...+ +-...+|+
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~  103 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA  103 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEE
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEE
Confidence            4456899999999999999999988543 33344444

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.19  E-value=0.0011  Score=55.59  Aligned_cols=40  Identities=30%  Similarity=0.318  Sum_probs=30.5

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +..|-..|.+.- +...++.|.|++|+|||+|+.+++....
T Consensus        20 ~~~LD~ll~GGl-~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          20 SSELDSVLGGGL-ESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             CHHHHHHTTSSE-ETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CHHHHHhcCCCc-cCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            344555554433 5678999999999999999999998754

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.17  E-value=0.0015  Score=55.80  Aligned_cols=39  Identities=18%  Similarity=0.021  Sum_probs=29.4

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccC
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRF  100 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f  100 (398)
                      +.+.+...  .+.+.++|.|++|+|||+|+.++++....+.
T Consensus        33 ~ID~l~Pi--grGQr~~I~g~~g~GKT~l~~~i~~~~~~~~   71 (289)
T d1xpua3          33 VLDLASPI--GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH   71 (289)
T ss_dssp             HHHHHSCC--BTTCEEEEEECSSSSHHHHHHHHHHHHHHHC
T ss_pred             eeeecccc--cCCCeeeEeCCCCCCHHHHHHHHHHHHhhcC
Confidence            45555433  4567889999999999999999998765443

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.13  E-value=0.0025  Score=51.90  Aligned_cols=32  Identities=16%  Similarity=0.193  Sum_probs=25.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEE
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYF  105 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~  105 (398)
                      .|+|.|..|+||||+++.+.+.+..+.-.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~   33 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVAT   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEE
Confidence            58899999999999999999988665433333

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.13  E-value=0.0016  Score=54.50  Aligned_cols=29  Identities=21%  Similarity=0.200  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +++.|+|-|+-|+||||+++.+.+.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~~   29 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPEW   29 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTTS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            46899999999999999999999876543

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.06  E-value=0.0011  Score=53.61  Aligned_cols=27  Identities=26%  Similarity=0.142  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .++-+|+|.|+.|+||||+++.+.+.+
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            455689999999999999999987654

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.05  E-value=0.0012  Score=56.50  Aligned_cols=38  Identities=13%  Similarity=0.126  Sum_probs=26.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.++|+|+|.+|+||||+++.+.+.+...--..+.++
T Consensus         2 ~k~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~   39 (288)
T d1a7ja_           2 KKHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIE   39 (288)
T ss_dssp             TTSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEe
Confidence            35679999999999999999999888765433333443

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.01  E-value=0.003  Score=56.34  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ....++..||+|||||.||+.+++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45568889999999999999998775

>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=95.89  E-value=0.0035  Score=51.16  Aligned_cols=34  Identities=21%  Similarity=0.254  Sum_probs=27.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccC-cceEE
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRF-EGSYF  105 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f-~~~~~  105 (398)
                      .+.|+|-|+.|+||||+++.+.+.+.... ..+.+
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~   36 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVF   36 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEE
Confidence            35799999999999999999999876553 33444

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.85  E-value=0.0025  Score=49.21  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|++|+|||||+..++..
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999999865

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.80  E-value=0.0028  Score=52.02  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=25.9

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      +.+.|+|-|+-|+||||+++.+.+.+..+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            45789999999999999999999988765

>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=95.76  E-value=0.0043  Score=53.37  Aligned_cols=35  Identities=17%  Similarity=0.350  Sum_probs=28.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.|+|+|-||+||||++..++..+......+..+.
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID   37 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEe
Confidence            46778999999999999999998877655555554

>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=95.76  E-value=0.0031  Score=50.64  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=19.0

Q ss_pred             ceEEEEEcCCCccHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~   93 (398)
                      +-+|+|+|++|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4578899999999999998773

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=95.75  E-value=0.0048  Score=47.57  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      +.-+|.+.|+=|+||||+++.+++.+.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            345899999999999999999999853

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.65  E-value=0.002  Score=52.33  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+..+++|.||.|+|||||.+.++..
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcc
Confidence            34568999999999999999999874

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.65  E-value=0.0085  Score=54.70  Aligned_cols=48  Identities=23%  Similarity=0.261  Sum_probs=34.6

Q ss_pred             cccccchhHHHHHHHhc---------cCCC--CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           49 KLVGVDSRIEEILSLLG---------VGLT--MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        49 ~fvGR~~el~~l~~~L~---------~~~~--~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ++||.++.-+.|.-.+.         ....  -.++-|++.||+|+|||.||+.+++.+
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            47777777777666552         1100  124568899999999999999999875

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.64  E-value=0.026  Score=45.37  Aligned_cols=33  Identities=18%  Similarity=0.068  Sum_probs=22.2

Q ss_pred             EEEEEcCCCccHHHHHHHHH-HHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFF-SKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~-~~~~~~f~~~~~~~  107 (398)
                      -++|.+|.|+|||+.+.... ..+. +...+++++
T Consensus        42 ~~il~apTGsGKT~~a~l~i~~~~~-~~~~vl~l~   75 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLAEMAMVREAI-KGGKSLYVV   75 (202)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CEEEEcCCCCchhHHHHHHHHHHhh-ccCcceeec
Confidence            36799999999998774433 3332 334567766

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.55  E-value=0.0055  Score=50.25  Aligned_cols=35  Identities=29%  Similarity=0.324  Sum_probs=26.8

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-++.|..+|.+      +..++.|++|+|||||...+...
T Consensus        84 ~g~~~L~~~l~~------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLKG------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHSS------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hhHhhHHHHhcC------CeEEEECCCCCCHHHHHHhhcch
Confidence            336777777743      46778999999999999987543

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.50  E-value=0.0031  Score=52.47  Aligned_cols=26  Identities=19%  Similarity=0.242  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|++|+|||||++.+.--
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            34568999999999999999988753

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.50  E-value=0.0036  Score=52.32  Aligned_cols=26  Identities=19%  Similarity=0.163  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...++|.|+.|+|||||++.++.-
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            45678999999999999999998864

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=95.50  E-value=0.0037  Score=51.96  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.||.|+|||||++.++.-
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4468999999999999999998753

>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=95.50  E-value=0.0031  Score=53.11  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .....++|+|++|+|||||++.++.-
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcc
Confidence            45568999999999999999998754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0018  Score=53.97  Aligned_cols=26  Identities=19%  Similarity=0.144  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .+.|+|-|+.|+||||+++.+.+.+.
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            47899999999999999999877653

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.47  E-value=0.007  Score=48.38  Aligned_cols=41  Identities=20%  Similarity=0.161  Sum_probs=33.2

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      .-+..+..+|.+ . ++.+.++++||+++|||++|..+++-+.
T Consensus        38 ~Fl~~l~~~l~~-~-PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          38 TFLGALKSFLKG-T-PKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHHHT-C-TTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC-C-CCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            455666777743 3 7889999999999999999999988764

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.46  E-value=0.003  Score=52.74  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...++|+|++|+|||||++.+..-
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            34568999999999999999998864

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.45  E-value=0.0039  Score=51.70  Aligned_cols=23  Identities=17%  Similarity=0.115  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..++|.||.|+|||||++.++.-
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            47789999999999999999874

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.43  E-value=0.0037  Score=52.55  Aligned_cols=26  Identities=19%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...++|+|+.|+|||||++.+..-
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcc
Confidence            45578999999999999999998763

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.40  E-value=0.004  Score=51.33  Aligned_cols=26  Identities=23%  Similarity=0.112  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||++.++.-
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            34568999999999999999999864

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.39  E-value=0.0043  Score=48.15  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|+|.+|+|||||...+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999999865

>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=95.39  E-value=0.0081  Score=52.46  Aligned_cols=88  Identities=11%  Similarity=-0.005  Sum_probs=51.6

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeechhhhhcCCHHHHHHHHHHHHhcCCCCCCCCccchHHHHHhhCC
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNVREAEETGKLADLRKELLSTLLNDGNMNKFPNIGLNFQSKRLTR  152 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  152 (398)
                      +.++|+|+.|+||||++..++..+.... .++-+.+..+.......        .......   ...-...+.+...++.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~-rivtiEd~~El~l~~~~--------~~~~~~~---~~~~~~~~ll~~~lR~  234 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEE-RIISIEDTEEIVFKHHK--------NYTQLFF---GGNITSADCLKSCLRM  234 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTC-CEEEEESSCCCCCSSCS--------SEEEEEC---BTTBCHHHHHHHHTTS
T ss_pred             CCEEEEeeccccchHHHHHHhhhccccc-ceeeccchhhhhccccc--------ccceecc---ccchhHHHHHHHHhcc
Confidence            3488999999999999999987764432 34444322221100000        0000000   0011145667777888


Q ss_pred             ceEEEEEeCCCChHhHHHHH
Q 015918          153 KKVLIVFDDVNHPRQIEFLI  172 (398)
Q Consensus       153 ~~~LlvlDd~~~~~~~~~l~  172 (398)
                      .|=.|++.++...+.+..+.
T Consensus       235 ~pd~iivgEiR~~ea~~~l~  254 (323)
T d1g6oa_         235 RPDRIILGELRSSEAYDFYN  254 (323)
T ss_dssp             CCSEEEESCCCSTHHHHHHH
T ss_pred             CCCcccCCccCchhHHHHHH
Confidence            88899999998777666543

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.38  E-value=0.0052  Score=48.36  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.++|.|++|+||||+|..+..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            357889999999999999998875

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=95.35  E-value=0.013  Score=43.67  Aligned_cols=37  Identities=16%  Similarity=-0.002  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCccHHHHHHH-HHHHhhccCcceEEEe
Q 015918           71 DTCKLGIWGIGGVGKTAIAGA-FFSKISRRFEGSYFAH  107 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~-~~~~~~~~f~~~~~~~  107 (398)
                      +.+.++|+++.|+|||..+.. +.......-..++++.
T Consensus         6 ~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~   43 (140)
T d1yksa1           6 KGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLA   43 (140)
T ss_dssp             TTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeee
Confidence            346788999999999976643 3444444444455554

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=95.31  E-value=0.0078  Score=49.10  Aligned_cols=35  Identities=17%  Similarity=0.018  Sum_probs=29.9

Q ss_pred             eEEEEEcCC-CccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIWGIG-GVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~G~~-G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +.+.|+|-+ |+||||++..++..+.++...+.++.
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            568899997 99999999999999888866666664

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.30  E-value=0.0047  Score=52.83  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+...++|.|+.|+|||||++.++.-
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCC
Confidence            45578999999999999999999864

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.23  E-value=0.0052  Score=47.84  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |++.|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.22  E-value=0.0094  Score=46.72  Aligned_cols=35  Identities=29%  Similarity=0.338  Sum_probs=25.6

Q ss_pred             HHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           57 IEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        57 l~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +..+..++..    +.--|+|.|.+|+|||||+..+...
T Consensus         4 ~~~~~~~~~~----k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNH----QEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTT----SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCC----CeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456666653    3345779999999999999988753

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.18  E-value=0.0055  Score=48.20  Aligned_cols=21  Identities=38%  Similarity=0.425  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|++|+|||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998764

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.17  E-value=0.21  Score=39.84  Aligned_cols=52  Identities=19%  Similarity=0.068  Sum_probs=36.7

Q ss_pred             cCcccccchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           47 ENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        47 ~~~fvGR~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +..+-=|+...+.+..++..     .+ .+|.++.|.|||.++..++.....+   +.+++
T Consensus        66 ~~~~~Lr~yQ~eav~~~~~~-----~~-~ll~~~tG~GKT~~a~~~~~~~~~~---~Liv~  117 (206)
T d2fz4a1          66 DAEISLRDYQEKALERWLVD-----KR-GCIVLPTGSGKTHVAMAAINELSTP---TLIVV  117 (206)
T ss_dssp             CCCCCCCHHHHHHHHHHTTT-----SE-EEEEESSSTTHHHHHHHHHHHSCSC---EEEEE
T ss_pred             CCCCCcCHHHHHHHHHHHhC-----CC-cEEEeCCCCCceehHHhHHHHhcCc---eeEEE
Confidence            44566788888888777642     23 4578899999999988888776433   45554

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.14  E-value=0.0051  Score=48.42  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...++|.|++|+||||||..+.++
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            356889999999999999998765

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.13  E-value=0.0052  Score=51.80  Aligned_cols=26  Identities=19%  Similarity=0.161  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            34568999999999999999998753

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.12  E-value=0.0058  Score=47.69  Aligned_cols=22  Identities=41%  Similarity=0.706  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..++..
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999999865

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.12  E-value=0.0059  Score=47.79  Aligned_cols=21  Identities=48%  Similarity=0.844  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..++..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999875

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.12  E-value=0.0043  Score=51.57  Aligned_cols=26  Identities=27%  Similarity=0.389  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+..+++|.|++|+|||||++.+..-
T Consensus        29 ~~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          29 ENGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            34568999999999999999999864

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.10  E-value=0.006  Score=47.58  Aligned_cols=21  Identities=38%  Similarity=0.430  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999999864

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.032  Score=46.07  Aligned_cols=26  Identities=19%  Similarity=-0.088  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +..++++|+||...||||+++.++-.
T Consensus        39 ~~~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          39 PQRRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEeccCchhhHHHHHHHHHH
Confidence            34578999999999999999998865

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.06  E-value=0.0069  Score=47.31  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...++|.|++|+||||+|..+.++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            357889999999999999998876

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.04  E-value=0.0064  Score=47.29  Aligned_cols=21  Identities=29%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999999865

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=95.03  E-value=0.009  Score=47.04  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +..-|+|.|.+|+|||||...+...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4456889999999999999888643

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.02  E-value=0.012  Score=48.31  Aligned_cols=35  Identities=20%  Similarity=0.259  Sum_probs=28.4

Q ss_pred             eEEEEE-cCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIW-GIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~-G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|+ |-||+||||++..++..+.+....+.++.
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            456665 89999999999999999887766677765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.00  E-value=0.0067  Score=47.48  Aligned_cols=21  Identities=29%  Similarity=0.316  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |++.|.+|+|||||+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998864

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.99  E-value=0.0062  Score=49.46  Aligned_cols=20  Identities=45%  Similarity=0.564  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCccHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAF   92 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~   92 (398)
                      -+|+|+|..|+||||+|..+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47899999999999998866

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.99  E-value=0.0067  Score=47.34  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..+...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998864

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.96  E-value=0.0063  Score=47.70  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..+++.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999999864

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.95  E-value=0.0069  Score=47.59  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            779999999999999998864

>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=94.93  E-value=0.0075  Score=49.10  Aligned_cols=20  Identities=35%  Similarity=0.461  Sum_probs=17.9

Q ss_pred             EEEEEcCCCccHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFF   93 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~   93 (398)
                      +|+|+|..|+||||.+..+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            78999999999999998663

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=94.91  E-value=0.0074  Score=47.26  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .|+|.|++|+|||||+..++.
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            588999999999999999974

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.90  E-value=0.0077  Score=48.82  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.|+|.|++|+|||||...+...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.0074  Score=47.23  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999865

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.0069  Score=47.43  Aligned_cols=21  Identities=33%  Similarity=0.759  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..++..
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568899999999999998864

>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=94.89  E-value=0.0063  Score=50.15  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.++.+|+|.-|+|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5689999999999999999999875

>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=94.89  E-value=0.023  Score=48.13  Aligned_cols=38  Identities=11%  Similarity=-0.071  Sum_probs=28.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh-ccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS-RRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~-~~f~~~~~~~  107 (398)
                      .+..+++|.|++|+|||+|+.+++..+. ..-..+.|++
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s   71 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee
Confidence            3457899999999999999999997753 3333455554

>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=94.86  E-value=0.019  Score=48.63  Aligned_cols=36  Identities=19%  Similarity=0.044  Sum_probs=26.2

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEE
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFA  106 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~  106 (398)
                      +.+.++|.|++|+|||+|+.........+....+|.
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~  101 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQQGQNVICVYV  101 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEE
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhhcccCceeeee
Confidence            445688999999999999998766644444444444

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.85  E-value=0.0076  Score=46.98  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..-|+|.|.+|+|||||+..++..
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            456788999999999999998764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.84  E-value=0.0078  Score=46.26  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|++|+|||||+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.84  E-value=0.0082  Score=48.56  Aligned_cols=23  Identities=22%  Similarity=0.184  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.|+|.|++|+|||||...+...
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            57899999999999999999864

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.83  E-value=0.0078  Score=46.93  Aligned_cols=21  Identities=33%  Similarity=0.517  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+.+.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999999864

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.82  E-value=0.008  Score=46.88  Aligned_cols=21  Identities=43%  Similarity=0.703  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999999865

>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=94.81  E-value=0.0078  Score=48.26  Aligned_cols=25  Identities=16%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +..+.|+|.|.+|+|||||...+..
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            4456799999999999999999984

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.79  E-value=0.0074  Score=47.43  Aligned_cols=23  Identities=43%  Similarity=0.616  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      --|+|.|.+|+|||+|+..++..
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35779999999999999998864

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=94.76  E-value=0.0074  Score=46.89  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|++|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3779999999999999998653

>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=94.76  E-value=0.0098  Score=50.45  Aligned_cols=27  Identities=22%  Similarity=0.270  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      ..+.+|+|++|+|||||+.+++..+..
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            368889999999999999999987543

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0077  Score=47.17  Aligned_cols=22  Identities=41%  Similarity=0.656  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..++..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3778999999999999998864

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0078  Score=47.46  Aligned_cols=22  Identities=36%  Similarity=0.303  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..+...
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678899999999999998865

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.74  E-value=0.0084  Score=47.55  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .=-|+|.|.+|+|||+|+..++..
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            335889999999999999999865

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.72  E-value=0.0098  Score=49.45  Aligned_cols=23  Identities=22%  Similarity=0.210  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999988664

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.72  E-value=0.0081  Score=46.77  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |++.|.+|+|||||+..++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.0081  Score=46.62  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999999864

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.68  E-value=0.0083  Score=46.71  Aligned_cols=21  Identities=38%  Similarity=0.635  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..++..
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678899999999999999874

>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=94.66  E-value=0.019  Score=48.57  Aligned_cols=36  Identities=22%  Similarity=0.252  Sum_probs=28.9

Q ss_pred             HHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           60 ILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        60 l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      +..+|.... ++...+.++|+|+.|||+++..+.+-+
T Consensus        93 l~~~L~~~~-~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          93 FLGWATKKF-GKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCS-TTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHcCCC-CccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            444555444 778899999999999999999988876

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.65  E-value=0.0093  Score=46.64  Aligned_cols=22  Identities=36%  Similarity=0.433  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..+...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.65  E-value=0.0091  Score=47.38  Aligned_cols=21  Identities=38%  Similarity=0.616  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+++.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999999864

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.63  E-value=0.0087  Score=47.57  Aligned_cols=20  Identities=35%  Similarity=0.381  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~   94 (398)
                      |+|.|.+|+|||||+..+++
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999998874

>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=94.62  E-value=0.018  Score=47.38  Aligned_cols=35  Identities=23%  Similarity=0.302  Sum_probs=28.5

Q ss_pred             eEEEEE-cCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           73 CKLGIW-GIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        73 ~~i~I~-G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ++|.|+ +-||+||||++..++..+.+....+..+.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            677777 77999999999999999887766666664

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.62  E-value=0.0095  Score=46.83  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.60  E-value=0.0097  Score=46.49  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999999865

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=94.58  E-value=0.0074  Score=50.70  Aligned_cols=25  Identities=16%  Similarity=0.243  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      .+...++|+|++|+|||||++.+..
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHh
Confidence            4556899999999999999998765

>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=94.56  E-value=0.01  Score=46.38  Aligned_cols=22  Identities=41%  Similarity=0.629  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..++..
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.54  E-value=0.0095  Score=46.51  Aligned_cols=21  Identities=38%  Similarity=0.498  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988753

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.52  E-value=0.01  Score=45.99  Aligned_cols=21  Identities=29%  Similarity=0.332  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|++|+|||||+..+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            668899999999999998764

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.51  E-value=0.014  Score=45.64  Aligned_cols=24  Identities=21%  Similarity=0.405  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +.--|+|.|++|+|||||+..+..
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhc
Confidence            344578999999999999988854

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.50  E-value=0.0096  Score=46.70  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.44  E-value=0.011  Score=46.39  Aligned_cols=21  Identities=29%  Similarity=0.645  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=94.43  E-value=0.01  Score=49.31  Aligned_cols=26  Identities=23%  Similarity=0.285  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+++|.||.|+|||||.+.++.-
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34568999999999999999988864

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=94.41  E-value=0.0086  Score=49.85  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+..+++|.||.|+|||||.+.++--
T Consensus        30 ~~Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          30 PRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34568999999999999999998864

>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=94.32  E-value=0.011  Score=46.97  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+++.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999998865

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.31  E-value=0.011  Score=47.37  Aligned_cols=21  Identities=33%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            778999999999999999864

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.29  E-value=0.013  Score=46.03  Aligned_cols=25  Identities=20%  Similarity=0.270  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....|+|.|.+|+|||||+..++..
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999864

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.012  Score=47.06  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998865

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.24  E-value=0.012  Score=46.52  Aligned_cols=21  Identities=29%  Similarity=0.359  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |++.|.+|+|||+|+..+++.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999875

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.23  E-value=0.012  Score=46.07  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|++.|.+|+|||+|+..++.
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998874

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.21  E-value=0.011  Score=49.74  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.||.|+|||||++.++-.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCC
Confidence            4568999999999999999998865

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.20  E-value=0.013  Score=45.68  Aligned_cols=21  Identities=52%  Similarity=0.800  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |++.|.+|+|||+|+..++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999999874

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.19  E-value=0.012  Score=45.39  Aligned_cols=21  Identities=24%  Similarity=0.344  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||...++..
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999854

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.14  E-value=0.014  Score=45.91  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..+...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.01  E-value=0.016  Score=46.03  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|++.|.+|+|||+|+.++...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3679999999999999988654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.01  E-value=0.016  Score=45.39  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+..|+|.|.+|+|||||...++..
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567899999999999999999864

>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=93.97  E-value=0.011  Score=48.88  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4568999999999999999988763

>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=93.97  E-value=0.06  Score=45.56  Aligned_cols=27  Identities=26%  Similarity=0.028  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      .+.+.++|.|++|+|||+|+..++...
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCCEEEeecCCCCChHHHHHHHHHhH
Confidence            345678899999999999999888653

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.95  E-value=0.015  Score=46.37  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||+|+..+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999765

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.87  E-value=0.014  Score=46.61  Aligned_cols=19  Identities=26%  Similarity=0.462  Sum_probs=17.4

Q ss_pred             EEEEEcCCCccHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAF   92 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~   92 (398)
                      -|+|.|.+|+|||||+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999998

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.84  E-value=0.017  Score=45.39  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4678999999999999999875

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=93.81  E-value=0.088  Score=44.81  Aligned_cols=38  Identities=16%  Similarity=-0.052  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCccHHH-HHHHHHHHhhccCcceEEEe
Q 015918           70 MDTCKLGIWGIGGVGKTA-IAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTt-La~~~~~~~~~~f~~~~~~~  107 (398)
                      .+.+.++|.|+.|+|||+ .+..+.+....+-..++++.
T Consensus         7 ~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi~   45 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILA   45 (305)
T ss_dssp             STTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEEE
T ss_pred             hcCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEEc
Confidence            355778999999999995 34344444333334566665

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.76  E-value=0.0079  Score=47.12  Aligned_cols=21  Identities=33%  Similarity=0.501  Sum_probs=17.2

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||+|+..+++.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999988754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.74  E-value=0.015  Score=45.82  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .|+|.|.+|+|||||...+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999998753

>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=93.65  E-value=0.032  Score=46.78  Aligned_cols=40  Identities=23%  Similarity=0.427  Sum_probs=28.5

Q ss_pred             hhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           55 SRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        55 ~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ..+.++...+.... ...-.|+|.|.+|+|||||...++.+
T Consensus        16 ~~l~e~~~~l~~~~-~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQED-VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTT-CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcC-CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34445555555433 34556889999999999999999864

>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=93.61  E-value=0.01  Score=46.55  Aligned_cols=22  Identities=23%  Similarity=0.302  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|++|+|||||+..++..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4778999999999999988643

>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=93.40  E-value=0.012  Score=46.13  Aligned_cols=21  Identities=38%  Similarity=0.439  Sum_probs=8.1

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988754

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=93.37  E-value=0.025  Score=44.51  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHH
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +.--|+|.|.+|+|||||...+..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            344567999999999999998753

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.31  E-value=0.016  Score=45.81  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|+|.|++|+|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998864

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.17  E-value=0.023  Score=46.45  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .-|+|.|.+|+|||||+..+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998643

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.05  E-value=0.026  Score=44.54  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      -|+|.|.+|+|||||+..++..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4778899999999999998854

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.04  E-value=0.035  Score=48.33  Aligned_cols=30  Identities=20%  Similarity=0.246  Sum_probs=25.2

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhccCc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISRRFE  101 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~  101 (398)
                      .-.|.|-|+-|+||||+++.+.+.+..+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~~   35 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGSP   35 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSSC
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCCC
Confidence            346889999999999999999988766543

>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=92.82  E-value=0.021  Score=44.92  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||...++..
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998743

>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=92.76  E-value=0.045  Score=47.18  Aligned_cols=20  Identities=10%  Similarity=0.260  Sum_probs=16.2

Q ss_pred             CceEecHHHHHHHHHHHhhc
Q 015918          343 NKIRMHDLMRNMGREIVRQE  362 (398)
Q Consensus       343 ~~~~~H~lir~~~~~~~~~~  362 (398)
                      -.|++++-|.++|..+++..
T Consensus       284 ~nyRs~~~I~~~an~ll~~~  303 (318)
T d1pjra1         284 QNYRSTKRILQAANEVIEHN  303 (318)
T ss_dssp             BCSSSCHHHHHHHHHHHTTC
T ss_pred             CCCCCcHHHHHHHHHHHHcC
Confidence            34888999999999987754

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.60  E-value=0.016  Score=47.60  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +..++.|++|+|||||...+..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCccHHHHHHhhcc
Confidence            3556889999999999998853

>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=92.51  E-value=0.021  Score=44.93  Aligned_cols=25  Identities=12%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      +....|+|.|.+++|||||...+..
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            4567799999999999999988753

>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=92.47  E-value=0.034  Score=47.61  Aligned_cols=20  Identities=5%  Similarity=0.062  Sum_probs=15.9

Q ss_pred             CCceEecHHHHHHHHHHHhh
Q 015918          342 YNKIRMHDLMRNMGREIVRQ  361 (398)
Q Consensus       342 ~~~~~~H~lir~~~~~~~~~  361 (398)
                      ...|+.|+-|-++|..++..
T Consensus       273 ~~nyRs~~~I~~~an~l~~~  292 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIAN  292 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHc
Confidence            34588999999999888764

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=92.41  E-value=0.035  Score=48.31  Aligned_cols=34  Identities=21%  Similarity=0.269  Sum_probs=27.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .|.|-|+-|+||||+++.+.+.+..+...+.++.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            4889999999999999999998766655555554

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.06  E-value=0.014  Score=44.80  Aligned_cols=21  Identities=24%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|.+|+|||||+..++..
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            789999999999999999865

>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=91.49  E-value=0.2  Score=32.83  Aligned_cols=66  Identities=14%  Similarity=-0.015  Sum_probs=53.9

Q ss_pred             HHHHHHhhcCcCCcChHHHHHHHHhcCccccccHHHHhhccCeeeccCCceEecHHHHHHHHHHHh
Q 015918          295 KNIFLDIACFLVGEDRDIVTKYLNACEFFATSGIEVLVDKSLITISEYNKIRMHDLMRNMGREIVR  360 (398)
Q Consensus       295 ~~~l~~la~~~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~H~lir~~~~~~~~  360 (398)
                      -.++..++--+.+.+...+...++.+.....+.+..|.+.|+++.+.+|.|.+=+-+-+++...++
T Consensus         8 l~IL~~~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~   73 (75)
T d1mkma1           8 FEILDFIVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLR   73 (75)
T ss_dssp             HHHHHHHHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHh
Confidence            345566666677799999999998888888899999999999998878899997777777776654

>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=91.34  E-value=0.15  Score=41.65  Aligned_cols=52  Identities=17%  Similarity=-0.004  Sum_probs=37.4

Q ss_pred             cchhHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           53 VDSRIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        53 R~~el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      ....++++.+.+..   +.+...+|+|..|+|||.++...+.........++++.
T Consensus        60 Q~~~~~~i~~~~~~---~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~  111 (233)
T d2eyqa3          60 QAQAINAVLSDMCQ---PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLV  111 (233)
T ss_dssp             HHHHHHHHHHHHHS---SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEEC
T ss_pred             HHHHHHHHHHHHhc---cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEc
Confidence            34445555555555   55667889999999999999999887656655566654

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.24  E-value=0.25  Score=37.52  Aligned_cols=36  Identities=14%  Similarity=0.024  Sum_probs=24.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEeec
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAHNV  109 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~~~  109 (398)
                      .|.|+=-.|=||||-|.-.+=+...+--.+..+..+
T Consensus         4 ~i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQFl   39 (157)
T d1g5ta_           4 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFI   39 (157)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEEe
Confidence            345555568999999988887755555556666544

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.83  E-value=0.23  Score=40.59  Aligned_cols=34  Identities=21%  Similarity=0.177  Sum_probs=24.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      -++|++|.|+|||+.+...+-....+...++++.
T Consensus        60 ~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~   93 (237)
T d1gkub1          60 SFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIF   93 (237)
T ss_dssp             CEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEE
T ss_pred             CEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEe
Confidence            4778899999999877666655444555677766

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.69  E-value=0.069  Score=45.02  Aligned_cols=26  Identities=19%  Similarity=0.129  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .+.|-|+|.|..|.|||||+..+++.
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHh
Confidence            45678999999999999999999876

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=90.29  E-value=0.099  Score=42.67  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .++|+|.|.+++|||||+..+...
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhh
Confidence            356999999999999999999875

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=90.23  E-value=0.092  Score=44.04  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .|-|+|.|..|.|||||+..+.+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHH
Confidence            367899999999999999999765

>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=89.65  E-value=0.13  Score=46.34  Aligned_cols=29  Identities=21%  Similarity=0.202  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           71 DTCKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        71 ~~~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ..+.+.|.|++|+|||+++..++......
T Consensus        49 ~~~H~~I~G~tGsGKT~~l~~li~~~~~~   77 (433)
T d1e9ra_          49 EPRHLLVNGATGTGKSVLLRELAYTGLLR   77 (433)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ccceEEEEeCCCCcHHHHHHHHHHHHHhC
Confidence            34678999999999999998887765444

>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=89.58  E-value=0.13  Score=36.98  Aligned_cols=27  Identities=11%  Similarity=0.055  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHHhhc
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSKISR   98 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~~~~   98 (398)
                      .=.|+++|..|+||+|+|..+...+.+
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            347889999999999999999888744

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=89.04  E-value=0.067  Score=46.30  Aligned_cols=25  Identities=28%  Similarity=0.243  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ..|.|-|+-|+||||+++.+.+.+.
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            4588999999999999999976654

>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=88.79  E-value=0.033  Score=44.28  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHHhhcc
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSKISRR   99 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~~~~~   99 (398)
                      ++.+|+|+.|+||||+...+..-+...
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~g~   51 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALIPD   51 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            356688999999999999998775443

>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=88.71  E-value=0.11  Score=40.50  Aligned_cols=21  Identities=33%  Similarity=0.521  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHH
Q 015918           74 KLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      -|+|.|.+++|||||...+++
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            488999999999999999874

>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=88.36  E-value=0.18  Score=42.47  Aligned_cols=33  Identities=18%  Similarity=0.206  Sum_probs=26.1

Q ss_pred             HHhccCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           62 SLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        62 ~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      +.|.... .+..+|.|.|+.++|||+|+..++..
T Consensus        23 ~~l~~~~-~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          23 KILSAIT-QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHTCC-SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHcCC-CCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            3444333 56789999999999999999998864

>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=87.67  E-value=0.13  Score=45.99  Aligned_cols=22  Identities=18%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      --|+|.|.+|+|||||...+..
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            4588999999999999999874

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.95  E-value=0.35  Score=40.16  Aligned_cols=49  Identities=18%  Similarity=-0.018  Sum_probs=33.0

Q ss_pred             hHHHHHHHhccCCCCCceEEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           56 RIEEILSLLGVGLTMDTCKLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        56 el~~l~~~L~~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      .+++|..-+.+   +.+..-+|+|.-|+|||-.+...+.........+++..
T Consensus        91 ai~ei~~d~~~---~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~  139 (264)
T d1gm5a3          91 AHQEIRNDMIS---EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMV  139 (264)
T ss_dssp             HHHHHHHHHHS---SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEEC
T ss_pred             HHHHHHHHhhc---cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEe
Confidence            34445554544   44456689999999999999988877544444566654

>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=86.41  E-value=0.59  Score=36.58  Aligned_cols=33  Identities=21%  Similarity=0.029  Sum_probs=21.6

Q ss_pred             EEEEcCCCccHHHHHHHHHHH-hhccCcceEEEe
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK-ISRRFEGSYFAH  107 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~-~~~~f~~~~~~~  107 (398)
                      ++|++|.|+|||..+..++.. ..+.-..++++.
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~   59 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLA   59 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEEC
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEc
Confidence            568899999999876655543 323333466665

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.37  E-value=0.23  Score=39.67  Aligned_cols=21  Identities=29%  Similarity=0.328  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHHH
Q 015918           75 LGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        75 i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      |+|.|-.+.|||||+.++.+.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            778999999999999999865

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.71  E-value=1  Score=35.67  Aligned_cols=34  Identities=15%  Similarity=-0.032  Sum_probs=21.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHHH--hhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSK--ISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~--~~~~f~~~~~~~  107 (398)
                      -+++.++.|+|||..+......  .......+++++
T Consensus        44 d~iv~a~TGsGKT~~~~l~~~~~~~~~~~~~~lil~   79 (208)
T d1hv8a1          44 NIVAQARTGSGKTASFAIPLIELVNENNGIEAIILT   79 (208)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEEC
T ss_pred             CeeeechhcccccceeecccccccccccCcceEEEe
Confidence            4678999999999866555533  223334455554

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.61  E-value=0.24  Score=44.07  Aligned_cols=24  Identities=25%  Similarity=0.234  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCccHHHHHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      .++.+|+|+.|+|||++...++..
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~   48 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFV   48 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            457789999999999999998754

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.33  E-value=0.16  Score=43.13  Aligned_cols=22  Identities=32%  Similarity=0.271  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCccHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFS   94 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~   94 (398)
                      ++.+|+|+-|+|||++...+.-
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4788999999999999887754

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.89  E-value=0.34  Score=41.95  Aligned_cols=26  Identities=8%  Similarity=0.249  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ...|-|+|.|..|.|||||+..+...
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHH
Confidence            46788999999999999999999865

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=84.22  E-value=0.47  Score=45.30  Aligned_cols=28  Identities=21%  Similarity=0.250  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+.|+|.|.+|+|||+-++.+.+.+.
T Consensus        84 ~~~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          84 QENQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4567899999999999999999998753

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=84.15  E-value=0.47  Score=45.46  Aligned_cols=27  Identities=26%  Similarity=0.238  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+.|+|.|.+|+|||.-++.+.+.+
T Consensus       123 ~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         123 RQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998874

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=83.82  E-value=0.49  Score=45.39  Aligned_cols=28  Identities=18%  Similarity=0.183  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+.|+|.|.+|+|||+-++.+.+.+.
T Consensus        89 ~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          89 REDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4568899999999999999999998853

>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=82.66  E-value=0.41  Score=38.75  Aligned_cols=23  Identities=17%  Similarity=-0.061  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCccHHHHHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ++++|+||...||||+.+.+.-.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHH
Confidence            47899999999999999988865

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=82.09  E-value=0.57  Score=45.47  Aligned_cols=28  Identities=21%  Similarity=0.227  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+.|+|.|.+|+|||+-++.+.+.+.
T Consensus       121 ~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2         121 RENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             TCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4567899999999999999999988753

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=81.94  E-value=0.62  Score=45.19  Aligned_cols=28  Identities=21%  Similarity=0.179  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHhh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKIS   97 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~~   97 (398)
                      ...+.|+|.|.+|+|||.-++.+.+.+.
T Consensus       119 ~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2         119 RENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             TSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999888753

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=81.12  E-value=0.37  Score=40.93  Aligned_cols=20  Identities=25%  Similarity=0.433  Sum_probs=17.0

Q ss_pred             ceEEEEEcCCCccHHHHHHH
Q 015918           72 TCKLGIWGIGGVGKTAIAGA   91 (398)
Q Consensus        72 ~~~i~I~G~~G~GKTtLa~~   91 (398)
                      ..+.++.|.+|+|||||...
T Consensus        14 ~~valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          14 GDVAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             CCEEEEEECTTSCHHHHTCB
T ss_pred             CCEEEEEccCCCCccccccC
Confidence            35788999999999998764

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=80.84  E-value=0.42  Score=40.42  Aligned_cols=19  Identities=26%  Similarity=0.475  Sum_probs=16.3

Q ss_pred             eEEEEEcCCCccHHHHHHH
Q 015918           73 CKLGIWGIGGVGKTAIAGA   91 (398)
Q Consensus        73 ~~i~I~G~~G~GKTtLa~~   91 (398)
                      .+.++.|.+|+|||||...
T Consensus        15 ~~alfFGLSGTGKTTLs~d   33 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLSTD   33 (313)
T ss_dssp             CEEEEECSTTSSHHHHHCC
T ss_pred             CEEEEEccCCCCcccceeC
Confidence            5778999999999998853

>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=80.73  E-value=2.7  Score=34.61  Aligned_cols=51  Identities=20%  Similarity=0.238  Sum_probs=32.4

Q ss_pred             cccCcccccchhHHHHHHHhc--------cCCCCCceEEEEEcCCCccHHHHHHHHHHH
Q 015918           45 ETENKLVGVDSRIEEILSLLG--------VGLTMDTCKLGIWGIGGVGKTAIAGAFFSK   95 (398)
Q Consensus        45 ~~~~~fvGR~~el~~l~~~L~--------~~~~~~~~~i~I~G~~G~GKTtLa~~~~~~   95 (398)
                      ....+..|.......+.+.+.        .......-.+.|.|.|.+|||||+..+..+
T Consensus        77 isa~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_          77 INSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             eecccCCCccccchhhhhhhhhhhhhhhhccCCCCceEEEEEecCccchhhhhhhhhcc
Confidence            444455555555555544432        111134456889999999999999988753

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=80.31  E-value=0.78  Score=44.08  Aligned_cols=27  Identities=22%  Similarity=0.159  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCccHHHHHHHHHHHh
Q 015918           70 MDTCKLGIWGIGGVGKTAIAGAFFSKI   96 (398)
Q Consensus        70 ~~~~~i~I~G~~G~GKTtLa~~~~~~~   96 (398)
                      ...+.|+|.|.+|+|||.-++.+.+.+
T Consensus        92 ~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          92 ERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999998864

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.10  E-value=0.76  Score=35.58  Aligned_cols=30  Identities=17%  Similarity=0.114  Sum_probs=23.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHHHhhccCcceEEEe
Q 015918           74 KLGIWGIGGVGKTAIAGAFFSKISRRFEGSYFAH  107 (398)
Q Consensus        74 ~i~I~G~~G~GKTtLa~~~~~~~~~~f~~~~~~~  107 (398)
                      +++|+|.+++|||..|.+++    ..+..+.|+.
T Consensus         1 iiLVtGGarSGKS~~AE~l~----~~~~~~~YiA   30 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI----GDAPQVLYIA   30 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH----CSCSSEEEEE
T ss_pred             CEEEECCCCccHHHHHHHHH----hcCCCcEEEE
Confidence            36899999999999998764    4455667765